[Go-diff] GO update 09/02/2008
Remote CVS for Gene Ontology
gocvs at genome.stanford.edu
Tue Sep 2 21:30:46 PDT 2008
OBODIFF of gene_ontology_write.obo version 1.186 by 1.189
Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0034754
* Created object of type obo:TERM with id GO:0034755
* Created object of type obo:TERM with id GO:0034756
* Created object of type obo:TERM with id GO:0034757
* Created object of type obo:TERM with id GO:0034758
* Created object of type obo:TERM with id GO:0034759
* Created object of type obo:TERM with id GO:0034760
* Created object of type obo:TERM with id GO:0034761
* Created object of type obo:TERM with id GO:0034762
* Created object of type obo:TERM with id GO:0034763
* Created object of type obo:TERM with id GO:0034764
* Created object of type obo:TERM with id GO:0034765
* Created object of type obo:TERM with id GO:0034766
* Created object of type obo:TERM with id GO:0034767
* Created object of type obo:TERM with id GO:0055121
* Created object of type obo:TERM with id GO:0055122
* Populated new object GO:0034754 (macro)
* Changed name of GO:0034754 from "<new term>" to "cellular hormone metabolic process"
* Set definition of GO:0034754 to "The chemical reactions and pathways involving any hormone, naturally occurring substances secreted by specialized cells that affects the metabolism or behavior of other cells possessing functional receptors for the hormone, as carried out by individual cells."
* Added definition dbxref GOC:mah to GO:0034754
* Copied GO:0034754 to GO:0042445 with type OBO_REL:is_a
* Copied GO:0034754 to GO:0044237 with type OBO_REL:is_a
* Assigned namespace "biological_process" to GO:0034754
* Populated new object GO:0034755 (macro)
* Changed name of GO:0034755 from "<new term>" to "transmembrane iron ion transport"
* Set definition of GO:0034755 to "A process whereby an iron ion is transported from one side of a membrane to the other."
* Added definition dbxref GOC:mah to GO:0034755
* Added synonym "transmembrane iron transport" to GO:0034755
* Changed synonym scope of GO:0034755 from "Related" to "Exact"
* Copied GO:0034755 to GO:0006826 with type OBO_REL:is_a
* Copied GO:0034755 to GO:0034220 with type OBO_REL:is_a
* Assigned namespace "biological_process" to GO:0034755
* Populated new object GO:0034756 (macro)
* Changed name of GO:0034756 from "<new term>" to "regulation of iron ion transport"
* Set definition of GO:0034756 to "Any process that modulates the frequency, rate or extent of the directed movement of iron ions (Fe) into, out of, within or between cells."
* Added definition dbxref GOC:mah to GO:0034756
* Added synonym "regulation of Fe transport" to GO:0034756
* Changed synonym scope of GO:0034756 from "Related" to "Exact"
* Added synonym "regulation of iron transport" to GO:0034756
* Changed synonym scope of GO:0034756 from "Related" to "Exact"
* Copied GO:0034756 to GO:0043269 with type OBO_REL:is_a
* Copied GO:0034756 to GO:0006826 with type regulates
* Assigned namespace "biological_process" to GO:0034756
* Populated new object GO:0034757 (macro)
* Changed name of GO:0034757 from "<new term>" to "negative regulation of iron ion transport"
* Set definition of GO:0034757 to "Any process that stops, prevents or reduces the frequency, rate or extent of the directed movement of iron ions into, out of, within or between cells."
* Added definition dbxref GOC:mah to GO:0034757
* Added synonym "down regulation of iron ion transport" to GO:0034757
* Changed synonym scope of GO:0034757 from "Related" to "Exact"
* Added synonym "down-regulation of iron ion transport" to GO:0034757
* Changed synonym scope of GO:0034757 from "Related" to "Exact"
* Added synonym "downregulation of iron ion transport" to GO:0034757
* Changed synonym scope of GO:0034757 from "Related" to "Exact"
* Added synonym "inhibition of iron ion transport" to GO:0034757
* Changed synonym scope of GO:0034757 from "Related" to "Narrow"
* Added synonym "negative regulation of iron transport" to GO:0034757
* Changed synonym scope of GO:0034757 from "Related" to "Exact"
* Copied GO:0034757 to GO:0006826 with type negatively_regulates
* Copied GO:0034757 to GO:0043271 with type OBO_REL:is_a
* Copied GO:0034757 to GO:0034756 with type OBO_REL:is_a
* Assigned namespace "biological_process" to GO:0034757
* Populated new object GO:0034758 (macro)
* Changed name of GO:0034758 from "<new term>" to "positive regulation of iron ion transport"
* Set definition of GO:0034758 to "Any process that activates or increases the frequency, rate or extent of the directed movement of iron ions into, out of, within or between cells."
* Added definition dbxref GOC:mah to GO:0034758
* Added synonym "activation of iron ion transport" to GO:0034758
* Changed synonym scope of GO:0034758 from "Related" to "Narrow"
* Added synonym "positive regulation of iron transport" to GO:0034758
* Changed synonym scope of GO:0034758 from "Related" to "Exact"
* Added synonym "stimulation of iron ion transport" to GO:0034758
* Changed synonym scope of GO:0034758 from "Related" to "Narrow"
* Added synonym "up regulation of iron ion transport" to GO:0034758
* Changed synonym scope of GO:0034758 from "Related" to "Exact"
* Added synonym "up-regulation of iron ion transport" to GO:0034758
* Changed synonym scope of GO:0034758 from "Related" to "Exact"
* Added synonym "upregulation of iron ion transport" to GO:0034758
* Changed synonym scope of GO:0034758 from "Related" to "Exact"
* Copied GO:0034758 to GO:0006826 with type positively_regulates
* Copied GO:0034758 to GO:0043270 with type OBO_REL:is_a
* Copied GO:0034758 to GO:0034756 with type OBO_REL:is_a
* Assigned namespace "biological_process" to GO:0034758
* Populated new object GO:0034759 (macro)
* Changed name of GO:0034759 from "<new term>" to "regulation of transmembrane iron ion transport"
* Set definition of GO:0034759 to "Any process that modulates the frequency, rate or extent of the directed movement of iron ions (Fe) from one side of a membrane to the other."
* Added definition dbxref GOC:mah to GO:0034759
* Added synonym "regulation of transmembrane Fe transport" to GO:0034759
* Changed synonym scope of GO:0034759 from "Related" to "Exact"
* Added synonym "regulation of transmembrane iron transport" to GO:0034759
* Changed synonym scope of GO:0034759 from "Related" to "Exact"
* Copied GO:0034759 to GO:0034755 with type regulates
* Copied GO:0034759 to GO:0034756 with type OBO_REL:is_a
* Assigned namespace "biological_process" to GO:0034759
* Populated new object GO:0034760 (macro)
* Changed name of GO:0034760 from "<new term>" to "negative regulation of transmembrane iron ion transport"
* Set definition of GO:0034760 to "Any process that stops, prevents or reduces the frequency, rate or extent of the directed movement of iron ions from one side of a membrane to the other."
* Added definition dbxref GOC:mah to GO:0034760
* Added synonym "down regulation of transmembrane iron ion transport" to GO:0034760
* Changed synonym scope of GO:0034760 from "Related" to "Exact"
* Added synonym "down-regulation of transmembrane iron ion transport" to GO:0034760
* Changed synonym scope of GO:0034760 from "Related" to "Exact"
* Added synonym "downregulation of transmembrane iron ion transport" to GO:0034760
* Changed synonym scope of GO:0034760 from "Related" to "Exact"
* Added synonym "inhibition of transmembrane iron ion transport" to GO:0034760
* Changed synonym scope of GO:0034760 from "Related" to "Narrow"
* Added synonym "negative regulation of transmembrane iron transport" to GO:0034760
* Changed synonym scope of GO:0034760 from "Related" to "Exact"
* Copied GO:0034760 to GO:0034757 with type OBO_REL:is_a
* Copied GO:0034760 to GO:0034755 with type negatively_regulates
* Assigned namespace "biological_process" to GO:0034760
* Populated new object GO:0034761 (macro)
* Changed name of GO:0034761 from "<new term>" to "positive regulation of transmembrane iron ion transport"
* Set definition of GO:0034761 to "Any process that activates or increases the frequency, rate or extent of the directed movement of iron ions from one side of a membrane to the other."
* Added definition dbxref GOC:mah to GO:0034761
* Added synonym "activation of transmembrane iron ion transport" to GO:0034761
* Changed synonym scope of GO:0034761 from "Related" to "Narrow"
* Added synonym "positive regulation of transmembrane iron transport" to GO:0034761
* Changed synonym scope of GO:0034761 from "Related" to "Exact"
* Added synonym "stimulation of transmembrane iron ion transport" to GO:0034761
* Changed synonym scope of GO:0034761 from "Related" to "Narrow"
* Added synonym "up regulation of transmembrane iron ion transport" to GO:0034761
* Changed synonym scope of GO:0034761 from "Related" to "Exact"
* Added synonym "up-regulation of transmembrane iron ion transport" to GO:0034761
* Changed synonym scope of GO:0034761 from "Related" to "Exact"
* Added synonym "upregulation of transmembrane iron ion transport" to GO:0034761
* Changed synonym scope of GO:0034761 from "Related" to "Exact"
* Copied GO:0034761 to GO:0034755 with type positively_regulates
* Copied GO:0034761 to GO:0034758 with type OBO_REL:is_a
* Assigned namespace "biological_process" to GO:0034761
* Populated new object GO:0034762 (macro)
* Changed name of GO:0034762 from "<new term>" to "regulation of transmembrane transport"
* Set definition of GO:0034762 to "Any process that modulates the frequency, rate or extent of the directed movement of a solute from one side of a membrane to the other."
* Added definition dbxref GOC:mah to GO:0034762
* Copied GO:0034762 to GO:0051049 with type OBO_REL:is_a
* Copied GO:0034762 to GO:0055085 with type regulates
* Assigned namespace "biological_process" to GO:0034762
* Populated new object GO:0034763 (macro)
* Changed name of GO:0034763 from "<new term>" to "negative regulation of transmembrane transport"
* Set definition of GO:0034763 to "Any process that stops, prevents or reduces the frequency, rate or extent of the directed movement of a solute from one side of a membrane to the other."
* Added definition dbxref GOC:mah to GO:0034763
* Added synonym "down regulation of transmembrane transport" to GO:0034763
* Changed synonym scope of GO:0034763 from "Related" to "Exact"
* Added synonym "down-regulation of transmembrane transport" to GO:0034763
* Changed synonym scope of GO:0034763 from "Related" to "Exact"
* Added synonym "downregulation of transmembrane transport" to GO:0034763
* Changed synonym scope of GO:0034763 from "Related" to "Exact"
* Added synonym "inhibition of transmembrane transport" to GO:0034763
* Changed synonym scope of GO:0034763 from "Related" to "Narrow"
* Copied GO:0034763 to GO:0034762 with type OBO_REL:is_a
* Copied GO:0034763 to GO:0055085 with type negatively_regulates
* Assigned namespace "biological_process" to GO:0034763
* Populated new object GO:0034764 (macro)
* Changed name of GO:0034764 from "<new term>" to "positive regulation of transmembrane transport"
* Set definition of GO:0034764 to "Any process that activates or increases the frequency, rate or extent of the directed movement of a solute from one side of a membrane to the other."
* Added definition dbxref GOC:mah to GO:0034764
* Added synonym "activation of transmembrane transport" to GO:0034764
* Changed synonym scope of GO:0034764 from "Related" to "Narrow"
* Added synonym "positive regulation of transmembrane transport" to GO:0034764
* Changed synonym scope of GO:0034764 from "Related" to "Exact"
* Added synonym "stimulation of transmembrane transport" to GO:0034764
* Changed synonym scope of GO:0034764 from "Related" to "Narrow"
* Added synonym "up regulation of transmembrane transport" to GO:0034764
* Changed synonym scope of GO:0034764 from "Related" to "Exact"
* Added synonym "up-regulation of transmembrane transport" to GO:0034764
* Changed synonym scope of GO:0034764 from "Related" to "Exact"
* Added synonym "upregulation of transmembrane transport" to GO:0034764
* Changed synonym scope of GO:0034764 from "Related" to "Exact"
* Copied GO:0034764 to GO:0034762 with type OBO_REL:is_a
* Copied GO:0034764 to GO:0055085 with type positively_regulates
* Assigned namespace "biological_process" to GO:0034764
* Populated new object GO:0034765 (macro)
* Changed name of GO:0034765 from "<new term>" to "regulation of transmembrane ion transport"
* Set definition of GO:0034765 to "Any process that modulates the frequency, rate or extent of the directed movement of ions from one side of a membrane to the other."
* Added definition dbxref GOC:mah to GO:0034765
* Copied GO:0034765 to GO:0034762 with type OBO_REL:is_a
* Copied GO:0034765 to GO:0034220 with type regulates
* Assigned namespace "biological_process" to GO:0034765
* Populated new object GO:0034766 (macro)
* Changed name of GO:0034766 from "<new term>" to "negative regulation of transmembrane ion transport"
* Set definition of GO:0034766 to "Any process that stops, prevents or reduces the frequency, rate or extent of the directed movement of ions from one side of a membrane to the other."
* Added definition dbxref GOC:mah to GO:0034766
* Added synonym "down regulation of transmembrane ion transport" to GO:0034766
* Changed synonym scope of GO:0034766 from "Related" to "Exact"
* Added synonym "down-regulation of transmembrane ion transport" to GO:0034766
* Changed synonym scope of GO:0034766 from "Related" to "Exact"
* Added synonym "downregulation of transmembrane ion transport" to GO:0034766
* Changed synonym scope of GO:0034766 from "Related" to "Exact"
* Added synonym "inhibition of transmembrane ion transport" to GO:0034766
* Changed synonym scope of GO:0034766 from "Related" to "Narrow"
* Copied GO:0034766 to GO:0034765 with type OBO_REL:is_a
* Copied GO:0034766 to GO:0034220 with type negatively_regulates
* Assigned namespace "biological_process" to GO:0034766
* Populated new object GO:0034767 (macro)
* Changed name of GO:0034767 from "<new term>" to "positive regulation of transmembrane ion transport"
* Set definition of GO:0034767 to "Any process that activates or increases the frequency, rate or extent of the directed movement of ions from one side of a membrane to the other."
* Added definition dbxref GOC:mah to GO:0034767
* Added synonym "activation of transmembrane ion transport" to GO:0034767
* Changed synonym scope of GO:0034767 from "Related" to "Narrow"
* Added synonym "positive regulation of transmembrane transport" to GO:0034767
* Changed synonym scope of GO:0034767 from "Related" to "Exact"
* Added synonym "stimulation of transmembrane ion transport" to GO:0034767
* Changed synonym scope of GO:0034767 from "Related" to "Narrow"
* Added synonym "up regulation of transmembrane ion transport" to GO:0034767
* Changed synonym scope of GO:0034767 from "Related" to "Exact"
* Added synonym "up-regulation of transmembrane ion transport" to GO:0034767
* Changed synonym scope of GO:0034767 from "Related" to "Exact"
* Added synonym "upregulation of transmembrane ion transport" to GO:0034767
* Changed synonym scope of GO:0034767 from "Related" to "Exact"
* Copied GO:0034767 to GO:0034755 with type positively_regulates
* Copied GO:0034767 to GO:0034765 with type OBO_REL:is_a
* Assigned namespace "biological_process" to GO:0034767
* Populated new object GO:0055121 (macro)
* Changed name of GO:0055121 from "<new term>" to "response to high fluence blue light stimulus by blue high-fluence system"
* Set definition of GO:0055121 to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the detection of a high fluence blue light stimulus by the blue high-fluence system. Blue light is electromagnetic radiation with a wavelength of between 440 and 500nm. The blue high-fluence system responds to blue light at levels between 100 and 1000 micromols/m2."
* Added definition dbxref GOC:mtg_far_red to GO:0055121
* Added synonym "response to high fluence blue light" to GO:0055121
* Changed synonym scope of GO:0055121 from "Related" to "Broad"
* Added synonym "response to high fluence blue light by bhf system" to GO:0055121
* Copied GO:0055121 to GO:0009644 with type OBO_REL:is_a
* Copied GO:0055121 to GO:0009637 with type OBO_REL:is_a
* Assigned namespace "biological_process" to GO:0055121
* Populated new object GO:0055122 (macro)
* Changed name of GO:0055122 from "<new term>" to "response to very low light intensity stimulus"
* Set definition of GO:0055122 to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a very low light intensity stimulus. A very low light intensity stimulus is defined as a level of electromagnetic radiation below 0.001 mmol/m2/sec."
* Added definition dbxref GOC:mtg_far_red to GO:0055122
* Copied GO:0055122 to GO:0009642 with type OBO_REL:is_a
* Assigned namespace "biological_process" to GO:0055122
* Deleted GO:0000040 --OBO_REL:is_a--> GO:0034220
* Copied GO:0000040 to GO:0034755 with type OBO_REL:is_a
* Changed definition of GO:0005882 from "A cytoskeletal structure that forms a distinct elongated structure, characteristically 10 nm in diameter, that occurs in the cytoplasm of eukaryotic cells. Intermediate filaments form a fibrous system, composed of chemically heterogeneous subunits and involved in mechanically integrating the various components of the cytoplasmic space. Intermediate filaments may be divided into five chemically distinct classes: Type I, acidic keratins; Type II, basic keratins; Type III, including desmin, vimentin and others; Type IV, neurofilaments and related filamentss; and Type V, lamins." to "A cytoskeletal structure that forms a distinct elongated structure, characteristically 10 nm in diameter, that occurs in the cytoplasm of eukaryotic cells. Intermediate filaments form a fibrous system, composed of chemically heterogeneous subunits and involved in mechanically integrating the various components of the cytoplasmic space. Intermediate filaments may be divided into five chemically distinct classes: Type I, acidic keratins; Type II, basic keratins; Type III, including desmin, vimentin and others; Type IV, neurofilaments and related filamentss; and Type V, lamins."
* Changed name of GO:0006066 from "alcohol metabolic process" to "cellular alcohol metabolic process"
* Changed definition of GO:0006066 from "The chemical reactions and pathways involving alcohols, any of a class of compounds containing one or more hydroxyl groups attached to a saturated carbon atom." to "The chemical reactions and pathways involving alcohols, any of a class of compounds containing one or more hydroxyl groups attached to a saturated carbon atom, as carried out by individual cells."
* Changed name of GO:0006081 from "aldehyde metabolic process" to "cellular aldehyde metabolic process"
* Changed definition of GO:0006081 from "The chemical reactions and pathways involving aldehydes, any organic compound with the formula R-CH=O." to "The chemical reactions and pathways involving aldehydes, any organic compound with the formula R-CH=O, as carried out by individual cells."
* Deleted GO:0006342 --OBO_REL:is_a--> GO:0031507
* Changed name of GO:0006519 from "amino acid and derivative metabolic process" to "cellular amino acid and derivative metabolic process"
* Changed definition of GO:0006519 from "The chemical reactions and pathways involving amino acids, organic acids containing one or more amino substituents, and compounds derived from amino acids." to "The chemical reactions and pathways involving amino acids, organic acids containing one or more amino substituents, and compounds derived from amino acids, as carried out by individual cells."
* Changed name of GO:0006725 from "aromatic compound metabolic process" to "cellular aromatic compound metabolic process"
* Changed definition of GO:0006725 from "The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons." to "The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells."
* Deleted GO:0006827 --OBO_REL:is_a--> GO:0034220
* Copied GO:0006827 to GO:0034755 with type OBO_REL:is_a
* Changed name of GO:0009308 from "amine metabolic process" to "cellular amine metabolic process"
* Changed definition of GO:0009308 from "The chemical reactions and pathways involving any organic compound that is weakly basic in character and contains an amino or a substituted amino group. Amines are called primary, secondary, or tertiary according to whether one, two, or three carbon atoms are attached to the nitrogen atom." to "The chemical reactions and pathways involving any organic compound that is weakly basic in character and contains an amino or a substituted amino group, as carried out by individual cells. Amines are called primary, secondary, or tertiary according to whether one, two, or three carbon atoms are attached to the nitrogen atom."
* Changed definition of GO:0009637 from "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a blue light stimulus. Blue light has a wavelength of between 440 and 500nm." to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a blue light stimulus. Blue light is electromagnetic radiation with a wavelength of between 440 and 500nm."
* Added definition dbxref GOC:mtg_far_red to GO:0009637
* Added definition dbxref GOC:mtg_far_red to GO:0009638
* Changed definition of GO:0009639 from "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a red or far red light stimulus. Red and far red light is that with a wavelength of above 620nm." to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a red or far red light stimulus. Red light is electromagnetic radiation of wavelength of 580-700nm. Far red light is electromagnetic radiation of wavelength 700-800nm. An example of this response is seen at the beginning of many plant species developmental stages. These include germination, and the point when cotyledon expansion is triggered. In certain species these processes take place in response to absorption of red light by the pigment molecule phytochrome, but the signal can be reversed by exposure to far red light. During the initial phase the phytochrome molecule is only present in the red light absorbing form, but on absorption of red light it changes to a far red light absorbing form, triggering progress through development. An immediate short period of exposure to far red light entirely returns the pigment to its initial state and prevents triggering of the developmental process. A thirty minute break between red and subsequent far red light exposure renders the red light effect irreversible, and development then occurs regardless of whether far red light exposure subsequently occurs."
* Added definition dbxref GOC:mtg_far_red to GO:0009639
* Changed name of GO:0009645 from "response to low light intensity" to "response to low light intensity stimulus"
* Changed definition of GO:0009645 from "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a low light intensity stimulus." to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a low light intensity stimulus. Low light intensity is defined as a level of electromagnetic radiation at or below 0.1 micromols/m2."
* Added definition dbxref GOC:mtg_far_red to GO:0009645
* Changed definition of GO:0009906 from "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a blue light (light with a wavelength of between 440 and 500nm) photoperiod stimulus." to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the detection of a blue light photoperiod stimulus. Blue light is electromagnetic radiation with a wavelength of between 440 and 500nm."
* Added definition dbxref GOC:mtg_far_red to GO:0009906
* Changed definition of GO:0009907 from "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a red light (light with a wavelength of between 620 and 700nm) photoperiod stimulus." to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a red light photoperiod stimulus. Red light is electromagnetic radiation of wavelength of 580-700nm."
* Added definition dbxref GOC:mtg_far_red to GO:0009907
* Changed definition of GO:0010017 from "The series of molecular signals initiated upon sensing by photoreceptor molecules of red light at 660nm or far red light at 730nm." to "The series of molecular signals initiated upon sensing by photoreceptor molecules of red light or far red light. Red light is electromagnetic radiation of wavelength of 580-700nm. Far red light is electromagnetic radiation of wavelength 700-800nm. An example of this response is seen at the beginning of many plant species developmental stages. These include germination, and the point when cotyledon expansion is triggered. In certain species these processes take place in response to absorption of red light by the pigment molecule phytochrome, but the signal can be reversed by exposure to far red light. During the initial phase the phytochrome molecule is only present in the red light absorbing form, but on absorption of red light it changes to a far red light absorbing form, triggering progress through development. An immediate short period of exposure to far red light entirely returns the pigment to its initial state and prevents triggering of the developmental process. A thirty minute break between red and subsequent far red light exposure renders the red light effect irreversible, and development then occurs regardless of whether far red light exposure subsequently occurs."
* Added definition dbxref GOC:mtg_far_red to GO:0010017
* Changed definition of GO:0010018 from "The series of molecular signals initiated upon sensing of far red light by photoreceptor molecule at 730 nm." to "The series of molecular signals initiated upon sensing of far red light by a photoreceptor molecule. Far red light is electromagnetic radiation of wavelength 700-800nm. An example of this response is seen at the beginning of many plant species developmental stages. These include germination, and the point when cotyledon expansion is triggered. In certain species these processes take place in response to absorption of red light by the pigment molecule phytochrome, but the signal can be reversed by exposure to far red light. During the initial phase the phytochrome molecule is only present in the red light absorbing form, but on absorption of red light it changes to a far red light absorbing form, triggering progress through development. An immediate short period of exposure to far red light entirely returns the pigment to its initial state and prevents triggering of the developmental process. A thirty minute break between red and subsequent far red light exposure renders the red light effect irreversible, and development then occurs regardless of whether far red light exposure subsequently occurs."
* Added definition dbxref GOC:mtg_far_red to GO:0010018
* Changed definition of GO:0010114 from "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a red light stimulus. Red light has a wavelength of between 620 and 700nm." to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a red light stimulus. Red light is electromagnetic radiation of wavelength of 580-700nm. An example of this response is seen at the beginning of many plant species developmental stages. These include germination, and the point when cotyledon expansion is triggered. In certain species these processes take place in response to absorption of red light by the pigment molecule phytochrome, but the signal can be reversed by exposure to far red light. During the initial phase the phytochrome molecule is only present in the red light absorbing form, but on absorption of red light it changes to a far red light absorbing form, triggering progress through development. An immediate short period of exposure to far red light entirely returns the pigment to its initial state and prevents triggering of the developmental process. A thirty minute break between red and subsequent far red light exposure renders the red light effect irreversible, and development then occurs regardless of whether far red light exposure subsequently occurs."
* Added definition dbxref GOC:mtg_far_red to GO:0010114
* Changed definition of GO:0010161 from "The series of molecular signals initiated upon sensing of red light by photoreceptor molecule at 660 nm." to "The series of molecular signals initiated upon sensing of red light by a photoreceptor molecule. Red light is electromagnetic radiation of wavelength of 580-700nm. An example of this response is seen at the beginning of many plant species developmental stages. These include germination, and the point when cotyledon expansion is triggered. In certain species these processes take place in response to absorption of red light by the pigment molecule phytochrome, but the signal can be reversed by exposure to far red light. During the initial phase the phytochrome molecule is only present in the red light absorbing form, but on absorption of red light it changes to a far red light absorbing form, triggering progress through development. An immediate short period of exposure to far red light entirely returns the pigment to its initial state and prevents triggering of the developmental process. A thirty minute break between red and subsequent far red light exposure renders the red light effect irreversible, and development then occurs regardless of whether far red light exposure subsequently occurs."
* Added definition dbxref GOC:mtg_far_red to GO:0010161
* Changed name of GO:0010201 from "response to high irradiance" to "response to continuous far red light stimulus by the high-irradiance response system"
* Changed definition of GO:0010201 from "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a high irradiance stimulus, continuous exposure to low levels of far-red light for a prolonged period of time and is not far-red reversible." to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the detection of a continuous far red light stimulus by the high-irradiance response system. Far red light is electromagnetic radiation of wavelength 700-800nm. The activity of the high-irradiance response system is characterised by stronger effects of continuous than pulsed light at equal total fluence."
* Added definition dbxref GOC:mtg_far_red to GO:0010201
* Deleted GO:0010201 --OBO_REL:is_a--> GO:0009639
* Copied GO:0010201 to GO:0010218 with type OBO_REL:is_a
* Changed name of GO:0010202 from "response to low fluence red light" to "response to low fluence red light stimulus"
* Changed definition of GO:0010202 from "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a low fluence red light stimulus. Low fluence red light is red light pulses followed by darkness, which occurs at red light levels of 0.001-0.1 mmol/m2/sec and is red/far-red reversible." to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a low fluence red light stimulus. Red light is electromagnetic radiation of wavelength of 580-700nm. Low fluence red light is defined in this case as short pulses of red light followed by darkness, providing a light level of 0.001-0.1 mmol/m2/sec."
* Added definition dbxref GOC:mtg_far_red to GO:0010202
* Copied GO:0010202 to GO:0009645 with type OBO_REL:is_a
* Changed name of GO:0010203 from "response to very low fluence red light" to "response to very low fluence red light stimulus"
* Changed definition of GO:0010203 from "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a very low fluence red light stimulus. Very low fluence red light is short pulses of very low fluence light followed by darkness, which occurs at light levels of less than 0.001 mmol/m2/sec red light and is not far-red reversible." to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a very low fluence red light stimulus. Red light is electromagnetic radiation of wavelength of 580-700nm. Very low fluence red light is defined in this case as short pulses of red light followed by darkness, providing light levels of less than 0.001 mmol/m2/sec."
* Added definition dbxref GOC:mtg_far_red to GO:0010203
* Copied GO:0010203 to GO:0055122 with type OBO_REL:is_a
* Changed definition of GO:0010218 from "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a far red light stimulus. Far red light has a wavelength of around 740nm." to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of far red light stimulus. Far red light is electromagnetic radiation of wavelength 700-800nm. An example of this response is seen at the beginning of many plant species developmental stages. These include germination, and the point when cotyledon expansion is triggered. In certain species these processes take place in response to absorption of red light by the pigment molecule phytochrome, but the signal can be reversed by exposure to far red light. During the initial phase the phytochrome molecule is only present in the red light absorbing form, but on absorption of red light it changes to a far red light absorbing form, triggering progress through development. An immediate short period of exposure to far red light entirely returns the pigment to its initial state and prevents triggering of the developmental process. A thirty minute break between red and subsequent far red light exposure renders the red light effect irreversible, and development then occurs regardless of whether far red light exposure subsequently occurs."
* Added definition dbxref GOC:mtg_far_red to GO:0010218
* Changed name of GO:0010244 from "response to low fluence blue light" to "response to low fluence blue light stimulus by blue low-fluence system"
* Changed definition of GO:0010244 from "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a low fluence blue light stimulus. Low fluence blue light is blue light (threshold 0.1 mmol/m2/sec); excitation of the Blue Low Fluence (BLF)-System induces the transcription of a number of nuclear and plastid coded genes." to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the detection of a low fluence blue light stimulus by the blue low-fluence system. Blue light is electromagnetic radiation with a wavelength of between 440 and 500nm. The blue low-fluence system responds to blue light at or below 0.1 micromols/m2. In certain species excitation of the blue low fluence system induces the transcription of a number of nuclear and plastid coded genes."
* Added definition dbxref GOC:mtg_far_red to GO:0010244
* Added synonym "response to low fluence blue light" to GO:0010244
* Changed synonym scope of GO:0010244 from "Related" to "Broad"
* Added synonym "response to low fluence blue light by blf system" to GO:0010244
* Changed synonym scope of GO:0010244 from "Related" to "Exact"
* Copied GO:0010244 to GO:0009645 with type OBO_REL:is_a
* Changed definition of GO:0016513 from "A heterodimeric transcription factor complex that contains an alpha subunit (Runx1, Runx2 or Runx3 in human) that binds DNA and a non-DNA-binding beta subunit (CBFbeta), and binds to a consensus sequence 5'-YGYGGTY-3' found in several enhancers and promoters; the beta subunit enhances the DNA binding of the alpha subunit." to "A heterodimeric transcription factor complex that contains an alpha subunit (Runx1, Runx2 or Runx3 in human) that binds DNA and a non-DNA-binding beta subunit (CBFbeta), and binds to a consensus sequence 5'-YGYGGTY-3' found in several enhancers and promoters; the beta subunit enhances the DNA binding of the alpha subunit."
* Changed definition of GO:0031389 from "A pentameric protein complex related to replication factor C, which loads a trimeric complex of checkpoint proteins (known as the checkpoint clamp or 9-1-1 complex) onto DNA at damage sites; functions in DNA damage cell cycle checkpoints. In Schizosaccharomyces pombe the subunits are known as Rad17, Rfc2, Rfc3, Rfc4, and Rfc5, while in Saccharomyces cerevisiae the subunits are known as Rad24p, Rfc2p, Rfc3p, Rfc4p, and Rfc5p." to "A pentameric protein complex related to replication factor C, which loads a trimeric complex of checkpoint proteins (known as the checkpoint clamp or 9-1-1 complex) onto DNA at damage sites; functions in DNA damage cell cycle checkpoints. In Schizosaccharomyces pombe the subunits are known as Rad17, Rfc2, Rfc3, Rfc4, and Rfc5, while in Saccharomyces cerevisiae the subunits are known as Rad24p, Rfc2p, Rfc3p, Rfc4p, and Rfc5p."
* Changed definition of GO:0035194 from "Any process of gene inactivation (silencing) in which small RNAs trigger degradation of mRNA." to "Any process of posttranscriptional gene inactivation (silencing) mediated by small RNA molecules that may trigger mRNA degradation or negatively regulate translation."
* Added definition dbxref GOC:mah to GO:0035194
* Changed name of GO:0042180 from "ketone metabolic process" to "cellular ketone metabolic process"
* Changed definition of GO:0042180 from "The chemical reactions and pathways involving any of a class of organic compounds that contain the carbonyl group, CO, and in which the carbonyl group is bonded only to carbon atoms. The general formula for a ketone is RCOR, where R and R are alkyl or aryl groups." to "The chemical reactions and pathways involving any of a class of organic compounds that contain the carbonyl group, CO, and in which the carbonyl group is bonded only to carbon atoms, as carried out by individual cells. The general formula for a ketone is RCOR, where R and R are alkyl or aryl groups."
* Deleted GO:0042445 --OBO_REL:is_a--> GO:0044237
* Copied GO:0042445 to GO:0008152 with type OBO_REL:is_a
* Changed name of GO:0043094 from "metabolic compound salvage" to "cellular metabolic compound salvage"
* Changed definition of GO:0043094 from "Any process which produces a useful metabolic compound from derivatives of it without de novo synthesis." to "Any process which produces a useful metabolic compound from derivatives of it without de novo synthesis, as carried out by individual cells."
* Added synonym "RTS1 barrier binding" to GO:0043110
* Changed synonym scope of GO:0043110 from "Related" to "Exact"
* Added synonym "RTS1 element binding" to GO:0043110
* Changed synonym scope of GO:0043110 from "Related" to "Exact"
* Changed name of GO:0043446 from "alkane metabolic process" to "cellular alkane metabolic process"
* Changed definition of GO:0043446 from "The chemical reactions and pathways involving an alkane, any saturated hydrocarbon without cycles." to "The chemical reactions and pathways involving an alkane, any saturated hydrocarbon without cycles, as carried out by individual cells."
* Changed name of GO:0043449 from "alkene metabolic process" to "cellular alkene metabolic process"
* Changed definition of GO:0043449 from "The chemical reactions and pathways involving an alkene, unsaturated hydrocarbons containing at least one carbon-carbon double bond." to "The chemical reactions and pathways involving an alkene, unsaturated hydrocarbons containing at least one carbon-carbon double bond, as carried out by individual cells."
* Changed name of GO:0043452 from "alkyne metabolic process" to "cellular alkyne metabolic process"
* Changed definition of GO:0043452 from "The chemical reactions and pathways involving an alkyne, any hydrocarbon that has at least one triple bond between two carbon atoms." to "The chemical reactions and pathways involving an alkyne, any hydrocarbon that has at least one triple bond between two carbon atoms, as carried out by individual cells."
* Changed name of GO:0043603 from "amide metabolic process" to "cellular amide metabolic process"
* Changed definition of GO:0043603 from "The chemical reactions and pathways involving an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group." to "The chemical reactions and pathways involving an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group, as carried out by individual cells."
* Changed name of GO:0046950 from "ketone body metabolic process" to "cellular ketone body metabolic process"
* Changed definition of GO:0046950 from "The chemical reactions and pathways involving ketone bodies, any one of the three substances: acetoacetate, D-3-hydroxybutyrate (beta-hydroxybutyrate) or acetone. Although 3-hydroxybutyrate is not a ketone, it is classed as a ketone body because it exists in an equilibrium with acetoacetate. Ketone bodies may accumulate in excessive amounts in the body in starvation, diabetes mellitus or in other defects of carbohydrate metabolism." to "The chemical reactions and pathways involving ketone bodies, any one of the three substances: acetoacetate, D-3-hydroxybutyrate (beta-hydroxybutyrate) or acetone, as carried out by individual cells. Although 3-hydroxybutyrate is not a ketone, it is classed as a ketone body because it exists in an equilibrium with acetoacetate. Ketone bodies may accumulate in excessive amounts in the body in starvation, diabetes mellitus or in other defects of carbohydrate metabolism."
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