[Go-diff] GO update 11/04/2008

[Remote CVS for Gene Ontology]

OBODIFF of gene_ontology_write.obo version 1.294 by 1.296

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Deleted synonym "E.coli endonuclease III activity" from GO:0003906
* Added synonym "E. coli endonuclease III activity" to GO:0003906
* Added general dbxref EC:4.2.99.18 to synonym E. coli endonuclease III activity of GO:0003906
* Changed synonym scope of GO:0003906 from "Related" to "Narrow"
* Deleted synonym "depolarisation-activated calcium channel" from GO:0005245
* Deleted synonym "depolarisation-activated voltage-gated calcium channel" from GO:0005245
* Added synonym "depolarization-activated voltage-gated calcium channel" to GO:0005245
* Changed synonym scope of GO:0005245 from "Related" to "Exact"
* Copied GO:0007618 to GO:0051704 with type OBO_REL:is_a
* Deleted synonym "E.coli exonuclease I" from GO:0008852
* Added synonym "E. coli exonuclease I" to GO:0008852
* Added general dbxref EC:3.1.11.1 to synonym E. coli exonuclease I of GO:0008852
* Deleted synonym "E.coli exonuclease III" from GO:0008853
* Added synonym "E. coli exonuclease III" to GO:0008853
* Added general dbxref EC:3.1.11.2 to synonym E. coli exonuclease III of GO:0008853
* Deleted synonym "E.coli exonuclease V" from GO:0008854
* Added synonym "E. coli exonuclease V" to GO:0008854
* Added general dbxref EC:3.1.11.5 to synonym E. coli exonuclease V of GO:0008854
* Deleted synonym "E.coli exonuclease VII" from GO:0008855
* Added synonym "E. coli exonuclease VII" to GO:0008855
* Added general dbxref EC:3.1.11.6 to synonym E. coli exonuclease VII of GO:0008855
* Changed definition of GO:0009648 from "A change in state or activity of the organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of detection of, or exposure to, a period of light or dark of a given length, measured relative to a particular duration known as the 'critical daylength'. The critical daylength varies between species." to "A change in state or activity of the organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of detection of, or exposure to, a period of light or dark of a given length, measured relative to a particular duration known as the 'critical day length'. The critical day length varies between species."
* Deleted synonym "response to daylength" from GO:0009648
* Deleted synonym "response to nightlength" from GO:0009648
* Added synonym "response to day length" to GO:0009648
* Changed synonym scope of GO:0009648 from "Related" to "Exact"
* Added synonym "response to night length" to GO:0009648
* Changed synonym scope of GO:0009648 from "Related" to "Exact"
* Changed definition of GO:0010368 from "A protein complex whose composition varies amongst species; in rice it probably exists in a homo-tetramer to homo-hexamer form and in Gram negative bacteria as a dimer. Functions in the hydrolysis of alpha-(1,6)-D-glucosidic branch linkages. Isoamylases in plants are intracellular and probably chloroplast localised." to "A protein complex whose composition varies amongst species; in rice it probably exists in a homo-tetramer to homo-hexamer form and in Gram negative bacteria as a dimer. Functions in the hydrolysis of alpha-(1,6)-D-glucosidic branch linkages. Isoamylases in plants are intracellular and probably chloroplast localized."
* Deleted synonym "actin filament reorganisation during cell cycle" from GO:0030037
* Added synonym "actin filament reorganization during cell cycle" to GO:0030037
* Changed synonym scope of GO:0030037 from "Related" to "Exact"
* Changed definition of GO:0030915 from "A conserved complex that contains a heterodimer of SMC proteins (Smc5p and Smc6p, or homologs thereof) and several other proteins, and is involved in DNA repair and maintaining cell cycle arrest following DNA damage. In S.cerevisiae, this is an octameric complex called Mms21-Smc5-Smc6 complex, with at least five of its subunits conserved in fission yeast and humans." to "A conserved complex that contains a heterodimer of SMC proteins (Smc5p and Smc6p, or homologs thereof) and several other proteins, and is involved in DNA repair and maintaining cell cycle arrest following DNA damage. In S. cerevisiae, this is an octameric complex called Mms21-Smc5-Smc6 complex, with at least five of its subunits conserved in fission yeast and humans."
* Changed definition of GO:0031475 from "A myosin complex containing a dimer of class V myosin heavy chains and associated light chains; involved in intracellular transport. Myosin V is a dimeric molecule consisting of conserved motor domains followed by 6 IQ motifs which bind specific light chains and calmodulin. The tail domain is important for cellular localisation and cargo binding and can be divided into an alpha-helical coiled coil region and a C-terminal globular region." to "A myosin complex containing a dimer of class V myosin heavy chains and associated light chains; involved in intracellular transport. Myosin V is a dimeric molecule consisting of conserved motor domains followed by 6 IQ motifs which bind specific light chains and calmodulin. The tail domain is important for cellular localization and cargo binding and can be divided into an alpha-helical coiled coil region and a C-terminal globular region."
* Deleted synonym "actin cytoskeleton reorganisation" from GO:0031532
* Added synonym "actin cytoskeleton reorganization" to GO:0031532
* Changed synonym scope of GO:0031532 from "Related" to "Exact"
* Changed definition of GO:0031533 from "A protein complex that consists of an RNA 5' triphosphatase and a guanyl transferase (Cet1p and Ceg1p in S. cerevisiae; Pct1 and Ceg1 in Sz. pombe) and is involved in mRNA capping." to "A protein complex that consists of an RNA 5' triphosphatase and a guanyl transferase (Cet1p and Ceg1p in S. cerevisiae; Pct1 and Ceg1 in S. pombe) and is involved in mRNA capping."
* Deleted synonym "ribosome localisation" from GO:0033750
* Added synonym "ribosome localization" to GO:0033750
* Changed synonym scope of GO:0033750 from "Related" to "Exact"
* Deleted synonym "establishment of ribosome localisation" from GO:0033753
* Added synonym "establishment of ribosome localization" to GO:0033753
* Changed synonym scope of GO:0033753 from "Related" to "Exact"
* Deleted synonym "extrachromosomal circular DNA localisation during cell ageing" from GO:0034652
* Added synonym "extrachromosomal circular DNA localization during cell ageing" to GO:0034652
* Changed synonym scope of GO:0034652 from "Related" to "Exact"
* Copied GO:0035263 to GO:0048609 with type OBO_REL:is_a
* Changed name of GO:0043937 from "regulation of sporualtion" to "regulation of sporulation"
* Changed definition of GO:0043937 from "Any process that modulates the frequency, rate or extent of sporualtion, the process whose specific outcome is the progression of a spore over time, from its initiation to the mature structure." to "Any process that modulates the frequency, rate or extent of sporulation, the process whose specific outcome is the progression of a spore over time, from its initiation to the mature structure."
* Changed name of GO:0043938 from "positive regulation of sporualtion" to "positive regulation of sporulation"
* Changed name of GO:0043939 from "negative regulation of sporualtion" to "negative regulation of sporulation"
* Changed definition of GO:0048571 from "A change in state or activity of the organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of detection of, or exposure to, a daylength that exceeds a particular duration known as the 'critical daylength'. The critical daylength varies between species. Although the term long-day is used, most species actually respond to the duration of the night, so that the response will occur when a period of darkness falls short of the number of hours defined by 24 hours minus the critical daylength." to "A change in state or activity of the organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of detection of, or exposure to, a day length that exceeds a particular duration known as the 'critical day length'. The critical day length varies between species. Although the term long-day is used, most species actually respond to the duration of the night, so that the response will occur when a period of darkness falls short of the number of hours defined by 24 hours minus the critical day length."
* Changed definition of GO:0048572 from "A change in state or activity of the organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of detection of, or exposure to, a daylength that falls short of a particular duration known as the 'critical daylength'. The critical daylength varies between species. Although the term short-day is used, most species actually respond to the duration of the night, so that the response will occur when a period of darkness exceeds the number of hours defined by 24 hours minus the critical daylength." to "A change in state or activity of the organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of detection of, or exposure to, a day length that falls short of a particular duration known as the 'critical day length'. The critical day length varies between species. Although the term short-day is used, most species actually respond to the duration of the night, so that the response will occur when a period of darkness exceeds the number of hours defined by 24 hours minus the critical day length."
* Changed definition of GO:0048573 from "A change from the vegetative to the reproductive phase as a result of detection of, or exposure to, a period of light or dark of a given length. The length of the period of light or dark required to initiate the change is set relative to a particular duration known as the 'critical daylength'. The critical daylength varies between species." to "A change from the vegetative to the reproductive phase as a result of detection of, or exposure to, a period of light or dark of a given length. The length of the period of light or dark required to initiate the change is set relative to a particular duration known as the 'critical day length'. The critical day length varies between species."
* Deleted synonym "response to daylength, flowering" from GO:0048573
* Deleted synonym "response to nightlength, flowering" from GO:0048573
* Added synonym "response to day length, flowering" to GO:0048573
* Changed synonym scope of GO:0048573 from "Related" to "Exact"
* Added synonym "response to night length, flowering" to GO:0048573
* Changed synonym scope of GO:0048573 from "Related" to "Exact"
* Changed definition of GO:0048574 from "A change from the vegetative to the reproductive phase as a result of detection of, or exposure to, a period of light that exceeds the critical daylength. The critical daylength varies between species. Although the term is long-day is used, most species actually respond to the duration of the night, so that the response will occur when a period of darkness falls short of the number of hours defined by 24 minus the critical daylength." to "A change from the vegetative to the reproductive phase as a result of detection of, or exposure to, a period of light that exceeds the critical day length. The critical day length varies between species. Although the term is long-day is used, most species actually respond to the duration of the night, so that the response will occur when a period of darkness falls short of the number of hours defined by 24 minus the critical day length."
* Changed definition of GO:0048575 from "A change from vegetative to reproductive phase as a result of detection of, or exposure to, a period of light that falls short of the critical daylength. The critical daylength varies between species. Although the term is short-day is used, most species actually respond to the duration of the night, so that the response will occur when a period of darkness exceeds the number of hours defined by 24 minus the critical daylength." to "A change from vegetative to reproductive phase as a result of detection of, or exposure to, a period of light that falls short of the critical day length. The critical day length varies between species. Although the term is short-day is used, most species actually respond to the duration of the night, so that the response will occur when a period of darkness exceeds the number of hours defined by 24 minus the critical day length."
* Deleted synonym "oocyte nucleus localisation during oocyte axis determination" from GO:0051663
* Deleted general dbxref GOC:tb from synonym oocyte nucleus localization during oocyte axis determination of GO:0051663
* Deleted general dbxref GOC:dph from synonym oocyte nucleus localization during oocyte axis determination of GO:0051663
* Changed synonym scope of GO:0051663 from "Related" to "Exact"
* Deleted synonym "mitochondria depolarisation" from GO:0051882
* Deleted synonym "mitochondrial depolarisation" from GO:0051882
* Deleted synonym "mitochondrial membrane depolarisation" from GO:0051882
* Deleted synonym "mitochondrion depolarisation" from GO:0051882
* Added synonym "mitochondrial depolarization" to GO:0051882
* Changed synonym scope of GO:0051882 from "Related" to "Exact"
* Changed definition of GO:0052567 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 reactive oxygen speciesc produced as part of the defense response of the host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction." 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 reactive oxygen species produced as part of the defense response of the host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction."
* Changed definition of GO:0060226 from "Any process that increases the process whereby a cell becomes commitsed to a retinal cone cell fate. Retinal cone cell fate commitment is the process whereby the developmental fate of a cell becomes restricted such that it will develop into a retinal cone cell." to "Any process that increases the process whereby a cell becomes committed to a retinal cone cell fate. Retinal cone cell fate commitment is the process whereby the developmental fate of a cell becomes restricted such that it will develop into a retinal cone cell."
* Deleted synonym "posititve regulation of response to immune interferon" from GO:0060332
* Added synonym "positive regulation of response to immune interferon" to GO:0060332
* Changed synonym scope of GO:0060332 from "Related" to "Exact"
* Deleted synonym "negative regualtion of type II interferon-mediated signaling pathway" from GO:0060336
* Added synonym "negative regulation of type II interferon-mediated signaling pathway" to GO:0060336
* Added general dbxref GOC:dph to synonym negative regulation of type II interferon-mediated signaling pathway of GO:0060336
* Changed synonym scope of GO:0060336 from "Related" to "Exact"
* Changed definition of GO:0060351 from "The process whose specific outcome is the progression of the cartilage that will provide a scaffold for mineralization of endochondal bones." to "The process whose specific outcome is the progression of the cartilage that will provide a scaffold for mineralization of endochondral bones."
* Changed definition of GO:0070080 from "Interacting selectively with the titin Z domain, which recognises and binds to the C-terminal calmodulin-like domain of alpha-actinin-2 (Act-EF34), adopts a helical structure, and binds in a groove formed by the two planes between the helix pairs of Act-EF34." to "Interacting selectively with the titin Z domain, which recognizes and binds to the C-terminal calmodulin-like domain of alpha-actinin-2 (Act-EF34), adopts a helical structure, and binds in a groove formed by the two planes between the helix pairs of Act-EF34."
* Changed name of GO:0075337 from "positive regualtion of growth or development of symbiont on or near host surface" to "positive regulation of growth or development of symbiont on or near host surface"