[Go-diff] GO update 09/18/2008

[Remote CVS for Gene Ontology]

OBODIFF of gene_ontology_write.obo version 1.218 by 1.220

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0034995
* Created object of type obo:TERM with id GO:0034996
* Created object of type obo:TERM with id GO:0034997
* Created object of type obo:TERM with id GO:0034998
* Created object of type obo:TERM with id GO:0034999
* Created object of type obo:TERM with id GO:0035000
* Created object of type obo:TERM with id GO:0080013
* Populated new object GO:0034995 (macro)
  * Changed name of GO:0034995 from "<new term>" to "SC5b-7 complex"
  * Set definition of GO:0034995 to "A protein complex that consist of complement components C5b6 and C7 stably inserted in a cell membrane. Formation of the SC5b-7 complex is the first phase of membrane attack complex assembly."
  * Added definition dbxref PMID:10090939 to GO:0034995
  * Copied GO:0034995 to GO:0005887 with type part_of
  * Copied GO:0034995 to GO:0044459 with type OBO_REL:is_a
  * Copied GO:0034995 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034995
* Populated new object GO:0034996 (macro)
  * Changed name of GO:0034996 from "<new term>" to "RasGAP-Fyn-Lyn-Yes complex"
  * Added comment "Note that the gene/protein name 'APC' should not be confused with the abbreviation for 'anaphase promoting complex'."
  * Set definition of GO:0034996 to "A protein complex that consists of a GTPase activator protein (GAP) for Ras and three Src family protein tyrosine kinases, Fyn, Lyn and Yes. The complex is involved in signaling upon platelet activation."
  * Added definition dbxref PMID:1544885 to GO:0034996
  * Added synonym "p21(ras)GAP-Fyn-Lyn-Yes complex, thrombin stimulated" to GO:0034996
  * Changed synonym scope of GO:0034996 from "Related" to "Narrow"
  * Copied GO:0034996 to GO:0044444 with type OBO_REL:is_a
  * Copied GO:0034996 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034996
* Populated new object GO:0034997 (macro)
  * Changed name of GO:0034997 from "<new term>" to "alphav-beta5 integrin-vitronectin complex"
  * Set definition of GO:0034997 to "A protein complex that comprises one integrin alphav subunit, one integrin beta5 subunit, and vitronectin."
  * Added definition dbxref PMID:1694173 to GO:0034997
  * Added definition dbxref Reactome:REACT_14045.1 to GO:0034997
  * Added synonym "ITGAV-ITGB5-VTN complex" to GO:0034997
  * Changed synonym scope of GO:0034997 from "Related" to "Narrow"
  * Copied GO:0034997 to GO:0005887 with type part_of
  * Copied GO:0034997 to GO:0044459 with type OBO_REL:is_a
  * Copied GO:0034997 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034997
* Populated new object GO:0034998 (macro)
  * Changed name of GO:0034998 from "<new term>" to "oligosaccharyltransferase I complex"
  * Set definition of GO:0034998 to "An oligosaccharyltransferase (OST) complex that contains at least seven polypeptides and is the major OST complex in mammalian cells. Of the three forms of mammalian OST complex identified, the OSTI complex has the weakest affinity for ribosomes."
  * Added definition dbxref PMID:15835887 to GO:0034998
  * Added synonym "OSTCI" to GO:0034998
  * Changed synonym scope of GO:0034998 from "Related" to "Exact"
  * Copied GO:0034998 to GO:0008250 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034998
* Populated new object GO:0034999 (macro)
  * Changed name of GO:0034999 from "<new term>" to "oligosaccharyltransferase II complex"
  * Set definition of GO:0034999 to "An oligosaccharyltransferase (OST) complex that contains the seven polypeptides found in OST complex I, plus heterotrimeric Sec61alpha-beta-gamma. Of the three forms of mammalian OST complexes identified, the OSTII complex has intermediate affinity for ribosomes."
  * Added definition dbxref PMID:15835887 to GO:0034999
  * Added synonym "OSTCII" to GO:0034999
  * Changed synonym scope of GO:0034999 from "Related" to "Exact"
  * Copied GO:0034999 to GO:0008250 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034999
* Populated new object GO:0035000 (macro)
  * Changed name of GO:0035000 from "<new term>" to "oligosaccharyltransferase III complex"
  * Set definition of GO:0035000 to "An oligosaccharyltransferase (OST) complex that contains the seven polypeptides found in OST complex I, plus heterotrimeric Sec61alpha-beta-gamma and the tetrameric TRAP complex. Of the three forms of mammalian OST complexes identified, the OSTIII complex has the strongest affinity for ribosomes."
  * Added definition dbxref PMID:15835887 to GO:0035000
  * Added synonym "OSTCIII" to GO:0035000
  * Changed synonym scope of GO:0035000 from "Related" to "Exact"
  * Copied GO:0035000 to GO:0008250 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0035000
* Populated new object GO:0080013 (macro)
  * Changed name of GO:0080013 from "<new term>" to "(E,E)-geranyllinalool synthase activity"
  * Set definition of GO:0080013 to "Catalysis of the reaction: (E,E,E)-geranylgeranyl diphosphate + H2O = (E,E)-geranyllinalool + diphosphate."
  * Added definition dbxref PMID:18398052 to GO:0080013
  * Copied GO:0080013 to GO:0016838 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0080013
* Changed definition of GO:0000447 from "Endonucleolytic cleavage beween the SSU-rRNA and the 5.8S rRNA of an rRNA molecule originally produced as a tricistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript." to "Endonucleolytic cleavage between the SSU-rRNA and the 5.8S rRNA of an rRNA molecule originally produced as a tricistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript."
* Changed definition of GO:0000484 from "Endonucleolytic cleavage beween the SSU-rRNA and the 5.8S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript." to "Endonucleolytic cleavage between the SSU-rRNA and the 5.8S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript."
* Changed definition of GO:0000485 from "Endonucleolytic cleavage beween the LSU-rRNA and the 2S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript." to "Endonucleolytic cleavage between the LSU-rRNA and the 2S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript."
* Changed definition of GO:0000486 from "Endonucleolytic cleavage beween the 5.8S rRNA and the 2S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript." to "Endonucleolytic cleavage between the 5.8S rRNA and the 2S rRNA of an rRNA molecule originally produced as a tetracistronic rRNA transcript that contained the Small SubUnit (SSU) rRNA, the 5.8S rRNA, 2S rRNA, and the Large SubUnit (LSU) rRNA, in that order, from 5' to 3' along the primary transcript."
* Deleted synonym "imperfect stage fruitng body development" from GO:0000905
* Added synonym "imperfect stage fruiting body development" to GO:0000905
* Changed synonym scope of GO:0000905 from "Related" to "Narrow"
* Changed definition of GO:0002046 from "Interacting selectively with an opsin, any of a group of hydrophbic, integral membrane glycoproteins located primarily in the disc membrane of rods or cones, involved in photoreception." to "Interacting selectively with an opsin, any of a group of hydrophobic, integral membrane glycoproteins located primarily in the disc membrane of rods or cones, involved in photoreception."
* Changed comment from "Note that jawless fish refers to both lamprays (Petremyzontidae, ncbi_taxonomy_id:7746) and hagfish (Myxinidae, ncbi_taxonomy_id:7762)." to "Note that jawless fish refers to both lampreys (Petremyzontidae, ncbi_taxonomy_id:7746) and hagfish (Myxinidae, ncbi_taxonomy_id:7762)."
* Changed definition of GO:0002679 from "A phase of elevated metabolic activity, during which oxygen consumption increases made as a defense reponse ; this leads to the production, by an NADH dependent system, of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals." to "A phase of elevated metabolic activity, during which oxygen consumption increases made as a defense response ; this leads to the production, by an NADH dependent system, of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals."
* Changed definition of GO:0003016 from "A organ system process carried out by any of the organs or tissues of the respiratory system. The respiratory system is an organ system responsible for respiratory gasseous exchange." to "A organ system process carried out by any of the organs or tissues of the respiratory system. The respiratory system is an organ system responsible for respiratory gaseous exchange."
* Changed definition of GO:0003051 from "The drinking bevavior that is mediated by the action of angiotensin in the brain. Angiotensin stimulates the brain centers that control thirst." to "The drinking behavior that is mediated by the action of angiotensin in the brain. Angiotensin stimulates the brain centers that control thirst."
* Deleted synonym "S-genotype-asssocd. glycoproteins" from GO:0004522
* Added synonym "S-genotype-assocd. glycoproteins" to GO:0004522
* Added general dbxref EC:3.1.27.5 to synonym S-genotype-assocd. glycoproteins of GO:0004522
* Deleted synonym "golgi alpha-mannosidase II" from GO:0004572
* Added synonym "Golgi alpha-mannosidase II" to GO:0004572
* Added general dbxref EC:3.2.1.114 to synonym Golgi alpha-mannosidase II of GO:0004572
* Changed definition of GO:0005579 from "A complex produced by sequentially activated components of the complement cascade inserted into a target cell membrane and forming a pore leading to cell lysis via ion and water flow." to "A protein complex produced by sequentially activated components of the complement cascade inserted into a target cell membrane and forming a pore leading to cell lysis via ion and water flow."
* Copied GO:0005579 to GO:0005887 with type part_of
* Copied GO:0005579 to GO:0044459 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 filaments; and Type V, lamins."
* Changed definition of GO:0005914 from "A small junction assombled during the cellularization stage of insect embyrogenesis; spot adherens junctions later fuse to form the zonula adherens." to "A small junction assembled during the cellularization stage of insect embyrogenesis; spot adherens junctions later fuse to form the zonula adherens."
* Changed comment from "Note that female germ lines can be found in female or hermaphroditic organisms, so this term can be used to annotate gene products from hermaprodites such as those of C. elegans. See also the biological process term 'meiosis ; GO:0007126'." to "Note that female germ lines can be found in female or hermaphroditic organisms, so this term can be used to annotate gene products from hermaphrodites such as those of C. elegans. See also the biological process term 'meiosis ; GO:0007126'."
* Changed comment from "Note that examples of periodic partions are tagmata, segments or parasegments." to "Note that examples of periodic partitions are tagmata, segments or parasegments."
* Changed name of GO:0008250 from "oligosaccharyl transferase complex" to "oligosaccharyltransferase complex"
* Changed definition of GO:0008250 from "A multisubunit protein complex in the endoplasmic reticulum membrane of eukaryotes that transfers lipid-linked oligosaccharide precursor to asparagine residues on nascent proteins; includes at least nine different subunits, at least in yeast." to "A protein complex that is found in the endoplasmic reticulum membrane of eukaryotes and transfers lipid-linked oligosaccharide precursor to asparagine residues on nascent proteins. In yeast, the complex includes at least nine different subunits, whereas in mammalian cells at least three different forms of the complex have been detected."
* Added definition dbxref PMID:15835887 to GO:0008250
* Added synonym "oligosaccharyl transferase complex" to GO:0008250
* Changed synonym scope of GO:0008250 from "Related" to "Exact"
* Changed name of GO:0009383 from "rRNA (cytosine-C5-967)-methyltransferase activity" to "rRNA (cytosine-C5-)-methyltransferase activity"
* Removed comment
* Changed definition of GO:0009383 from "Catalysis of the transfer of a methyl group from S-adenosyl-L-methionine to cytosine to form 5-methylcytosine, at position 967 in the Escherichia coli small subunit ribosomal RNA or the equivalent position in the small subunit rRNA of other species." to "Catalysis of the transfer of a methyl group from S-adenosyl-L-methionine to cytosine to form 5-methylcytosine in small subunit ribosomal RNA."
* Added definition dbxref GOC:imk to GO:0009383
* Added definition dbxref PMID:18786544 to GO:0009383
* Changed synonym scope of GO:0009383 from "Exact" to "Narrow"
* Added synonym "rRNA (cytosine-C5-967)-methyltransferase activity" to GO:0009383
* Changed synonym scope of GO:0009383 from "Related" to "Narrow"
* Changed definition of GO:0009386 from "Translational attentuation is a regulatory mechanism analogous to ribosome-mediated transcriptional attenuation. The system requires the presence of a short ORF, called a leader peptide, encoded in the mRNA upstream of the ribosome-binding site and start codon of the gene whose translation is to be regulated. Certain conditions, such as presence of the antibiotic tetracycline in bacteria or amino acid starvation, may cause slowing or stalling of the ribosome translating the leader peptide. The stalled ribosome masks a region of the mRNA and affects which of two alternative mRNA folded structures will form, therefore controlling whether or not a ribosome will bind and initiate translation of the downstream gene. Translational attenuation is analogous to ribosome-mediated transcriptional attenuation, in which mRNA remodeling caused by ribosome stalling regulates transcriptional termination rather than translational initiation." to "Translational attenuation is a regulatory mechanism analogous to ribosome-mediated transcriptional attenuation. The system requires the presence of a short ORF, called a leader peptide, encoded in the mRNA upstream of the ribosome-binding site and start codon of the gene whose translation is to be regulated. Certain conditions, such as presence of the antibiotic tetracycline in bacteria or amino acid starvation, may cause slowing or stalling of the ribosome translating the leader peptide. The stalled ribosome masks a region of the mRNA and affects which of two alternative mRNA folded structures will form, therefore controlling whether or not a ribosome will bind and initiate translation of the downstream gene. Translational attenuation is analogous to ribosome-mediated transcriptional attenuation, in which mRNA remodeling caused by ribosome stalling regulates transcriptional termination rather than translational initiation."
* Deleted synonym "post-embryonic morphogenesis of an anotomical structure" from GO:0009886
* Added synonym "post-embryonic morphogenesis of an anatomical structure" to GO:0009886
* Changed synonym scope of GO:0009886 from "Related" to "Exact"
* Changed definition of GO:0010142 from "The pathway that converts actetate, in the form of acetyl-CoA, to farnesyl diphosphate (FPP) through a series of mevalonate intermediates. Farnesyl diphosphate is an important substrate for other essential pathways, such as biosynthesis of sterols." to "The pathway that converts acetate, in the form of acetyl-CoA, to farnesyl diphosphate (FPP) through a series of mevalonate intermediates. Farnesyl diphosphate is an important substrate for other essential pathways, such as biosynthesis of sterols."
* Changed definition of GO:0010160 from "The regionalization process that specificies organ primordium boundaries resulting in a restriction of organogenesis to a limited spatial domain and keeping the organ separate from surrounding tissues." to "The regionalization process that specifies organ primordium boundaries resulting in a restriction of organogenesis to a limited spatial domain and keeping the organ separate from surrounding tissues."
* 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 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." 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 characterized by stronger effects of continuous than pulsed light at equal total fluence."
* Deleted synonym "cholorophyll-b synthase activity" from GO:0010277
* Added synonym "chlorophyll-b synthase activity" to GO:0010277
* Added general dbxref EC:1.13.12.14 to synonym chlorophyll-b synthase activity of GO:0010277
* Changed synonym scope of GO:0010277 from "Related" to "Exact"
* Changed definition of GO:0010289 from "The formation from simpler components of the pectidic homogalacturonan, charaterized by a backbone of 1,4-linked alpha-D-GalpA residues that can be methyl-esterified at C-6 and carry acetyl groups on O-2 and O-3." to "The formation from simpler components of the pectidic homogalacturonan, characterized by a backbone of 1,4-linked alpha-D-GalpA residues that can be methyl-esterified at C-6 and carry acetyl groups on O-2 and O-3."
* Changed definition of GO:0010332 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 gamma radiation stimulus. Gamma radiation is a form of electromagnetic radiation (EMR) or light emission of a specific frequency produced from sub-atomic particle interaction, such as electron-positron annihilation and radioactive decay. Gamma rays are generally characterised as EMR having the highest frequency and energy, and also the shortest wavelength, within the electromagnetic radiation spectrum." 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 gamma radiation stimulus. Gamma radiation is a form of electromagnetic radiation (EMR) or light emission of a specific frequency produced from sub-atomic particle interaction, such as electron-positron annihilation and radioactive decay. Gamma rays are generally characterized as EMR having the highest frequency and energy, and also the shortest wavelength, within the electromagnetic radiation spectrum."
* Changed definition of GO:0014720 from "A process whereby force is generated within tonic skeletal muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step. The chemo-mechanical energy conversion step is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. The tonic skeletal muscle is characterised by long lasting contractile responses and high resistance to fatigue." to "A process whereby force is generated within tonic skeletal muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step. The chemo-mechanical energy conversion step is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. The tonic skeletal muscle is characterized by long lasting contractile responses and high resistance to fatigue."
* Changed definition of GO:0014834 from "The process essential to mantain a ready source of satellite cells. It consists of the return of activated satellite cells to a quiescent state after proliferation to replenish the satellite cell pool. Satellite cells are quiescent cells that are located between the basal lamina and the plasmalemma of the muscle fibre, which are the main contributors to postnatal muscle growth. In adult muscle, satellite cells become activated to divide and differentiate in response to muscle damage." to "The process essential to maintain a ready source of satellite cells. It consists of the return of activated satellite cells to a quiescent state after proliferation to replenish the satellite cell pool. Satellite cells are quiescent cells that are located between the basal lamina and the plasmalemma of the muscle fibre, which are the main contributors to postnatal muscle growth. In adult muscle, satellite cells become activated to divide and differentiate in response to muscle damage."
* Deleted synonym "4-aminobutanoate:proton symporter activty" from GO:0015495
* Added synonym "4-aminobutanoate:proton symporter activity" to GO:0015495
* Changed synonym scope of GO:0015495 from "Related" to "Exact"
* Added synonym "gamma-glutamylcysteine synthetase complex" to GO:0017109
* Changed synonym scope of GO:0017109 from "Related" to "Exact"
* Deleted synonym "nuclear migration to the embryo sac centr" from GO:0023003
* Added synonym "nuclear migration to the embryo sac centre" to GO:0023003
* Changed synonym scope of GO:0023003 from "Related" to "Exact"
* Deleted synonym "isthmomesencephalic boundary develoment" from GO:0030917
* Added synonym "isthmomesencephalic boundary development" to GO:0030917
* Changed synonym scope of GO:0030917 from "Related" to "Exact"
* Changed definition of GO:0031028 from "The series of molecular signals, mediated by the small GTPase Ras, that results in the initiation of contraction of the contractile ring, at the begining of cytokinesis and cell division by septum formation. The pathway coordinates chromosome segregation with mitotic exit and cytokinesis." to "The series of molecular signals, mediated by the small GTPase Ras, that results in the initiation of contraction of the contractile ring, at the beginning of cytokinesis and cell division by septum formation. The pathway coordinates chromosome segregation with mitotic exit and cytokinesis."
* Changed definition of GO:0031317 from "A complex consisting of two membrane proteins and one extracytoplasmic solute receptor. Such transporters transport a variety of substrates without direct ATP power, instead using enery from ion gradients." to "A complex consisting of two membrane proteins and one extracytoplasmic solute receptor. Such transporters transport a variety of substrates without direct ATP power, instead using energy from ion gradients."
* Changed definition of GO:0031419 from "Interacting lelectively with cobalamin (vitamin B12), a water-soluble vitamin characterized by possession of a corrin nucleus containing a cobalt atom." to "Interacting selectively with cobalamin (vitamin B12), a water-soluble vitamin characterized by possession of a corrin nucleus containing a cobalt atom."
* Changed definition of GO:0031443 from "A process whereby force is generated within fast-twitch skeletal muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step. The chemo-mechanical energy conversion step is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. The fast-twitch skeletal muscle is characterised by fast time parameters, high force development and fatiguability." to "A process whereby force is generated within fast-twitch skeletal muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step. The chemo-mechanical energy conversion step is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. The fast-twitch skeletal muscle is characterized by fast time parameters, high force development and fatiguability."
* Changed definition of GO:0031444 from "A process whereby force is generated within slow-twitch skeletal muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step. The chemo-mechanical energy conversion step is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. The slow-twitch skeletal muscle is characterised by slow time parameters, low force development and resistance to fatigue." to "A process whereby force is generated within slow-twitch skeletal muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step. The chemo-mechanical energy conversion step is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. The slow-twitch skeletal muscle is characterized by slow time parameters, low force development and resistance to fatigue."
* Changed definition of GO:0031468 from "The reformation of the nuclear envelope fllowing its breakdown in the context of a normal process." to "The reformation of the nuclear envelope following its breakdown in the context of a normal process."
* Changed definition of GO:0031536 from "Any processactivates or increases the rate of progression from anaphase/telophase (high mitotic CDK activity) to G1 (low mitotic CDK activity)." to "Any process that activates or increases the rate of progression from anaphase/telophase (high mitotic CDK activity) to G1 (low mitotic CDK activity)."
* Changed definition of GO:0031556 from "A type of transcriptional regulation at the level of early termination. This process can occur only in prokaryotes, where transcription of an operon into messenger RNA and translation of that mRNA into polypeptides occur simultaneously. The general principle is that alternative mRNA secondary structures occur under different physiological conditions such as availabe amount of a particular amino acid. One set of conditions favors early termination of transcription. In the classic example of the trp biosynthesis operon, translation of the gene for a short, trp-containing polypeptide called the trp operon leader peptide pauses either at a trp codon (if tryptophan is scarce) or the stop codon (if trp is readily available). In the former situation transcription continues, but in the latter a Rho-independent terminator forms and reduces, or attenuates, expression of the tryptophan biosynthesis genes. Although the polypeptides encoded by leader peptide genes appear not to be stable once their translation is complete, it is suggested by recent studies that their nascent polypeptide chains interact specifically with ribosomes, specific uncharged tRNAs, or other cellular components to inhibit release at the stop codon and improve the function of transcriptional attenuation as a regulatory switch." to "A type of transcriptional regulation at the level of early termination. This process can occur only in prokaryotes, where transcription of an operon into messenger RNA and translation of that mRNA into polypeptides occur simultaneously. The general principle is that alternative mRNA secondary structures occur under different physiological conditions such as available amount of a particular amino acid. One set of conditions favors early termination of transcription. In the classic example of the trp biosynthesis operon, translation of the gene for a short, trp-containing polypeptide called the trp operon leader peptide pauses either at a trp codon (if tryptophan is scarce) or the!
 stop codon (if trp is readily available). In the former situation transcription continues, but in the latter a Rho-independent terminator forms and reduces, or attenuates, expression of the tryptophan biosynthesis genes. Although the polypeptides encoded by leader peptide genes appear not to be stable once their translation is complete, it is suggested by recent studies that their nascent polypeptide chains interact specifically with ribosomes, specific uncharged tRNAs, or other cellular components to inhibit release at the stop codon and improve the function of transcriptional attenuation as a regulatory switch."
* Changed definition of GO:0032065 from "A process by which a protein or protein complex is mantained in a specific location in the cell cortex." to "A process by which a protein or protein complex is maintained in a specific location in the cell cortex."
* Changed definition of GO:0032133 from "A eukaryotically conserved protein complex that localizes to kinetochores in early mitosis, the spindle mid-zone in anaphase B and to the telophase midbody. It has been proposed that the passenger comples coordinates various events based on its location to different structures during the course of mitosis. Complex members include the BIR-domain containing protein survivin, aurora kinase and INCENP." to "A eukaryotically conserved protein complex that localizes to kinetochores in early mitosis, the spindle mid-zone in anaphase B and to the telophase midbody. It has been proposed that the passenger complex coordinates various events based on its location to different structures during the course of mitosis. Complex members include the BIR-domain containing protein survivin, aurora kinase and INCENP."
* Changed definition of GO:0032159 from "A faint structure formed of septins found at the leading edge of growth in germ tubes and hyphae in fungal cells growing filamentiously. This cap of septins colocalizes with a region of the plasma membrane that is rich in ergosterol." to "A faint structure formed of septins found at the leading edge of growth in germ tubes and hyphae in fungal cells growing filamentously. This cap of septins colocalizes with a region of the plasma membrane that is rich in ergosterol."
* Changed definition of GO:0032164 from "A faint structure formed of septins found at the leading edge of growth in hyphae of fungal cells growing filamentiously. This cap of septins colocalizes with a region of the plasma membrane that is rich in ergosterol." to "A faint structure formed of septins found at the leading edge of growth in hyphae of fungal cells growing filamentously. This cap of septins colocalizes with a region of the plasma membrane that is rich in ergosterol."
* Changed definition of GO:0032171 from "A faint structure formed of septins found at the leading edge of growth in germ tubes of fungal cells growing filamentiously. This cap of septins colocalizes with a region of the plasma membrane that is rich in ergosterol." to "A faint structure formed of septins found at the leading edge of growth in germ tubes of fungal cells growing filamentously. This cap of septins colocalizes with a region of the plasma membrane that is rich in ergosterol."
* Deleted synonym "regulation of chitin biosynthes" from GO:0032883
* Added synonym "regulation of chitin biosynthesis" to GO:0032883
* Changed definition of GO:0032947 from "Functions to provide a physical suport for the assembly of a multiprotein complex." to "Functions to provide a physical support for the assembly of a multiprotein complex."
* Changed definition of GO:0033174 from "The catalytic sector of the mitochondrial hydrogen-transporting ATP synthase; it comprises the catalytic core and central stalk, and is peripherally associated with the choroplast thylakoid membrane when the entire ATP synthase is assembled. The choroplast F0 domain contains three alpha, three beta, one gamma, one delta, and one epsilon subunits." to "The catalytic sector of the mitochondrial hydrogen-transporting ATP synthase; it comprises the catalytic core and central stalk, and is peripherally associated with the chloroplast thylakoid membrane when the entire ATP synthase is assembled. The chloroplast F0 domain contains three alpha, three beta, one gamma, one delta, and one epsilon subunits."
* Deleted synonym "RNase P RNA binidng" from GO:0033204
* Added synonym "RNase P RNA binding" to GO:0033204
* Changed synonym scope of GO:0033204 from "Related" to "Exact"
* Changed definition of GO:0033359 from "The chemical reactions and pathways resulting in the formation of lysine, via the intermediates diaminopimelate and N-succinyl-2-amino-6-ketopimelate; in this pathway tetrahydrodipicolinate is coverted to meso-diaminopimelate in four enzymatic steps." to "The chemical reactions and pathways resulting in the formation of lysine, via the intermediates diaminopimelate and N-succinyl-2-amino-6-ketopimelate; in this pathway tetrahydrodipicolinate is converted to meso-diaminopimelate in four enzymatic steps."
* Changed definition of GO:0033360 from "The chemical reactions and pathways resulting in the formation of lysine, via the intermediates diaminopimelate and L-2-acetamido-6-oxoheptanedioate; in this pathway tetrahydrodipicolinate is coverted to meso-diaminopimelate in four enzymatic steps." to "The chemical reactions and pathways resulting in the formation of lysine, via the intermediates diaminopimelate and L-2-acetamido-6-oxoheptanedioate; in this pathway tetrahydrodipicolinate is converted to meso-diaminopimelate in four enzymatic steps."
* Changed definition of GO:0033361 from "The chemical reactions and pathways resulting in the formation of lysine, via the intermediate diaminopimelate; in this pathway tetrahydrodipicolinate is coverted to meso-diaminopimelate in a single enzymatic step." to "The chemical reactions and pathways resulting in the formation of lysine, via the intermediate diaminopimelate; in this pathway tetrahydrodipicolinate is converted to meso-diaminopimelate in a single enzymatic step."
* Changed definition of GO:0033362 from "The chemical reactions and pathways resulting in the formation of lysine, via the intermediate diaminopimelate; in this pathway tetrahydrodipicolinate is coverted to meso-diaminopimelate in two enzymatic steps." to "The chemical reactions and pathways resulting in the formation of lysine, via the intermediate diaminopimelate; in this pathway tetrahydrodipicolinate is converted to meso-diaminopimelate in two enzymatic steps."
* Changed definition of GO:0033393 from "The chemical reactions and pathways resulting in the breakdown of homogalacturonan, a pectidic polymer, charaterized by a backbone of 1,4-linked alpha-D-GalpA residues that can be methyl-esterified at C-6 and carry acetyl groups on O-2 and O-3." to "The chemical reactions and pathways resulting in the breakdown of homogalacturonan, a pectidic polymer, characterized by a backbone of 1,4-linked alpha-D-GalpA residues that can be methyl-esterified at C-6 and carry acetyl groups on O-2 and O-3."
* Changed definition of GO:0033526 from "The chemical reactions and pathways leading to the formation of tetrapyrroles, natural pigments containing four pyrrole rings joined by one-carbon units linking position 2 of one pyrrole ring to position 5 of the next, from other compouds, including L-glutamate." to "The chemical reactions and pathways leading to the formation of tetrapyrroles, natural pigments containing four pyrrole rings joined by one-carbon units linking position 2 of one pyrrole ring to position 5 of the next, from other compounds, including L-glutamate."
* Changed definition of GO:0033527 from "The chemical reactions and pathways leading to the formation of tetrapyrroles, natural pigments containing four pyrrole rings joined by one-carbon units linking position 2 of one pyrrole ring to position 5 of the next, from other compouds, including glycine and succinyl-CoA." to "The chemical reactions and pathways leading to the formation of tetrapyrroles, natural pigments containing four pyrrole rings joined by one-carbon units linking position 2 of one pyrrole ring to position 5 of the next, from other compounds, including glycine and succinyl-CoA."
* Changed definition of GO:0034508 from "The aggregation, arrangement and bonding together of proteins and centromeric DNA molecules to form a centromeric protein-DNA complex. Includes the formation of the chromatin structures which form a platform for the kinetochore, and assembly of the kinetochore onto this specialzed chromatin. In fission yeast and higher eukaryotes this process also includes the formation of heterochromatin at the outer repeat (pericentric) regions of the centromere." to "The aggregation, arrangement and bonding together of proteins and centromeric DNA molecules to form a centromeric protein-DNA complex. Includes the formation of the chromatin structures which form a platform for the kinetochore, and assembly of the kinetochore onto this specialized chromatin. In fission yeast and higher eukaryotes this process also includes the formation of heterochromatin at the outer repeat (pericentric) regions of the centromere."
* Changed definition of GO:0034640 from "The directed movement of a mitochondrion by attachement to a microtubule, followed by elongation of the microtubule by tubulin polymerization." to "The directed movement of a mitochondrion by attachment to a microtubule, followed by elongation of the microtubule by tubulin polymerization."
* Changed definition of GO:0035118 from "The process, occurring in the embryo, by which the anatomical structures of the pectoral fin are generated and organized. Morphogenesis pertains to the creation of form. Pectoral fins are bilaterally paired fins mounted lateraly and located behind the gill covers of fish. These fins are used for lateral mobility and propulsion." to "The process, occurring in the embryo, by which the anatomical structures of the pectoral fin are generated and organized. Morphogenesis pertains to the creation of form. Pectoral fins are bilaterally paired fins mounted laterally and located behind the gill covers of fish. These fins are used for lateral mobility and propulsion."
* Changed definition of GO:0035130 from "The process, occurring after embryonic development, by which the anatomical structures of the pectoral fin are generated and organized. Morphogenesis pertains to the creation of form. Pectoral fins are bilaterally paired fins mounted lateraly and located behind the gill covers of fish. These fins are used for lateral mobility and propulsion." to "The process, occurring after embryonic development, by which the anatomical structures of the pectoral fin are generated and organized. Morphogenesis pertains to the creation of form. Pectoral fins are bilaterally paired fins mounted laterally and located behind the gill covers of fish. These fins are used for lateral mobility and propulsion."
* Changed definition of GO:0035138 from "The process by which the anatomical structures of the pectoral fin are generated and organized. Morphogenesis pertains to the creation of form. Pectoral fins are bilaterally paired fins mounted lateraly and located behind the gill covers of fish. These fins are used for lateral mobility and propulsion." to "The process by which the anatomical structures of the pectoral fin are generated and organized. Morphogenesis pertains to the creation of form. Pectoral fins are bilaterally paired fins mounted laterally and located behind the gill covers of fish. These fins are used for lateral mobility and propulsion."
* Changed definition of GO:0035148 from "Creation of the central hole of a tube in an antomical structure through which gases and/or liquids flow." to "Creation of the central hole of a tube in an anatomical structure through which gases and/or liquids flow."
* Changed definition of GO:0035295 from "The process whose specific outcome is the progression of a tube over time, from its intial formation to a mature structure. Epithelial and endothelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues including lung and trachea, kidney, the mammary gland, the vascular system and the gastrointestinal and urinary-genital tracts." to "The process whose specific outcome is the progression of a tube over time, from its initial formation to a mature structure. Epithelial and endothelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues including lung and trachea, kidney, the mammary gland, the vascular system and the gastrointestinal and urinary-genital tracts."
* Changed definition of GO:0042046 from "The chemical reactions and pathways involving the W-molybdopterin cofactor, essential for the catalytic activity of some enzymes. The cofator consists of a mononuclear tungsten ion (W) coordinated by one or two molybdopterin ligands." to "The chemical reactions and pathways involving the W-molybdopterin cofactor, essential for the catalytic activity of some enzymes. The cofactor consists of a mononuclear tungsten ion (W) coordinated by one or two molybdopterin ligands."
* Changed definition of GO:0042675 from "The process whereby a relatively unspecialized cell acquires the specialized features of a compound eye cone cell, a cone-shaped cell, that focusses light in a compound eye." to "The process whereby a relatively unspecialized cell acquires the specialized features of a compound eye cone cell, a cone-shaped cell, that focuses light in a compound eye."
* Changed definition of GO:0043614 from "A multifactor complex composed of multiple translation initiation factors and the initiatior tRNAiMet, which is ready to bind to the small (40S) ribosome to form the 43S preintiation complex. In S. cerevisiae, this complex is composed of eIF1, eIF2, eIF3, and eIF5." to "A multifactor complex composed of multiple translation initiation factors and the initiatior tRNAiMet, which is ready to bind to the small (40S) ribosome to form the 43S preinitiation complex. In S. cerevisiae, this complex is composed of eIF1, eIF2, eIF3, and eIF5."
* Changed definition of GO:0045898 from "Any process that modulates the frequency, rate or extent of transcriptional preinitiation complex assebly." to "Any process that modulates the frequency, rate or extent of transcriptional preinitiation complex assembly."
* Changed definition of GO:0046833 from "Any process that activates or increases the frequency, rate or extent of firected movement of RNA from the nucleus into the cytoplasm." to "Any process that activates or increases the frequency, rate or extent of directed movement of RNA from the nucleus into the cytoplasm."
* Changed definition of GO:0048868 from "The process whose specific outcome is the progression of a pollen tube over time, from its intial formation to a mature structure." to "The process whose specific outcome is the progression of a pollen tube over time, from its initial formation to a mature structure."
* Changed definition of GO:0048938 from "The process by which the structure of a glial cell in a lateral line nerve is generated and organized. This process occurs while the initally relatively unspecialized cell is acquiring the specialized features of a glial cell in a lateral line nerve." to "The process by which the structure of a glial cell in a lateral line nerve is generated and organized. This process occurs while the initially relatively unspecialized cell is acquiring the specialized features of a glial cell in a lateral line nerve."
* Changed definition of GO:0048940 from "The process by which the structures of a glial cell in the anterior lateral line nerve are generated and organized. This process occurs while the initally relatively unspecialized cell is acquiring the specialized features of a glial cell in the anterior lateral line nerve." to "The process by which the structures of a glial cell in the anterior lateral line nerve are generated and organized. This process occurs while the initially relatively unspecialized cell is acquiring the specialized features of a glial cell in the anterior lateral line nerve."
* Changed definition of GO:0048942 from "The process by which the structures of a glial cell in the posterior lateral line nerve are generated and organized. This process occurs while the initally relatively unspecialized cell is acquiring the specialized features of a glial cell in the posterior lateral line nerve." to "The process by which the structures of a glial cell in the posterior lateral line nerve are generated and organized. This process occurs while the initially relatively unspecialized cell is acquiring the specialized features of a glial cell in the posterior lateral line nerve."
* Deleted synonym "UDPglucose-favonoid 7-O-glucosyltransferase activity" from GO:0050004
* Added synonym "UDPglucose-flavonoid 7-O-glucosyltransferase activity" to GO:0050004
* Added general dbxref EC:2.4.1.170 to synonym UDPglucose-flavonoid 7-O-glucosyltransferase activity of GO:0050004
* Changed synonym scope of GO:0050004 from "Related" to "Exact"
* Deleted synonym "sedoheptulose 1,7-diphospate phosphatase activity" from GO:0050278
* Added synonym "sedoheptulose 1,7-diphosphate phosphatase activity" to GO:0050278
* Added general dbxref EC:3.1.3.37 to synonym sedoheptulose 1,7-diphosphate phosphatase activity of GO:0050278
* Changed synonym scope of GO:0050278 from "Related" to "Exact"
* Changed definition of GO:0051485 from "The chemical reactions and pathways resulting in the formation of terpenoids via isopentenyl diphosphate, synthesized by the mevalonate pathway. Isopentenyl diphosphate (IPP) is the fundamental unit in terpenoid biosynthesis, and in mevalonate-dependent terpenoid biosynthesis, actetate, in the form of acetyl-CoA, is converted to isopentenyl diphosphate (IPP) through a series of mevalonate intermediates." to "The chemical reactions and pathways resulting in the formation of terpenoids via isopentenyl diphosphate, synthesized by the mevalonate pathway. Isopentenyl diphosphate (IPP) is the fundamental unit in terpenoid biosynthesis, and in mevalonate-dependent terpenoid biosynthesis, acetate, in the form of acetyl-CoA, is converted to isopentenyl diphosphate (IPP) through a series of mevalonate intermediates."
* Deleted synonym "cell cycle switching, meiotis to mitosis" from GO:0051727
* Added synonym "cell cycle switching, meiosis to mitosis" to GO:0051727
* Changed synonym scope of GO:0051727 from "Related" to "Narrow"
* Changed definition of GO:0060004 from "An automatic response to a stimulus beginning with a nerve impulse from a receptor and ending with the action of an effector such as a gland or a muscle. Signaling never reaches a level of conciousness." to "An automatic response to a stimulus beginning with a nerve impulse from a receptor and ending with the action of an effector such as a gland or a muscle. Signaling never reaches a level of consciousness."
* Changed definition of GO:0060005 from "A reflex process by which a response to an angular or linear acceleration stimulus begins with an afferent nerve impulse from a receptor in the inner ear and ends with the compensatory action of eye muscles. Signaling never reaches a level of conciousness." to "A reflex process by which a response to an angular or linear acceleration stimulus begins with an afferent nerve impulse from a receptor in the inner ear and ends with the compensatory action of eye muscles. Signaling never reaches a level of consciousness."
* Changed definition of GO:0060006 from "A vestibular reflex by which a response to an angular acceleration stimulus begins with an afferent nerve impulse from a receptor in the semi-circular canal and ends with the compensatory action of eye muscles. Signaling never reaches a level of conciousness." to "A vestibular reflex by which a response to an angular acceleration stimulus begins with an afferent nerve impulse from a receptor in the semi-circular canal and ends with the compensatory action of eye muscles. Signaling never reaches a level of consciousness."
* Changed definition of GO:0060007 from "A vestibular reflex by which a response to a linear acceleration stimulus begins with an afferent nerve impulse from a receptor in the otolith and ends with the compensatory action of eye muscles. Signaling never reaches a level of conciousness." to "A vestibular reflex by which a response to a linear acceleration stimulus begins with an afferent nerve impulse from a receptor in the otolith and ends with the compensatory action of eye muscles. Signaling never reaches a level of consciousness."
* Changed definition of GO:0060156 from "An automatic response to suckling, beginning with a nerve impulse from a receptor in the mammary gland and ending with the ejection of milk from the gland. Signaling never reaches a level of conciousness." to "An automatic response to suckling, beginning with a nerve impulse from a receptor in the mammary gland and ending with the ejection of milk from the gland. Signaling never reaches a level of consciousness."
* Changed definition of GO:0060222 from "Any process that modulates the process whereby a cell becomes commited 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 modulates 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."
* Changed definition of GO:0060226 from "Any process that increases the process whereby a cell becomes commited 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 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."
* Changed definition of GO:0060237 from "Any process that modulates the rate, frequenct or extent of the formation, arrangement of constituent parts, or disassembly of the fungal-type cell wall." to "Any process that modulates the rate, frequency or extent of the formation, arrangement of constituent parts, or disassembly of the fungal-type cell wall."
* Changed definition of GO:0060264 from "Any process that modulates the rate, frequency or extent of a phase of elevated metabolic activity, during which oxygen consumption increases made as a defense reponse ; this leads to the production, by an NADH dependent system, of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals." to "Any process that modulates the rate, frequency or extent of a phase of elevated metabolic activity, during which oxygen consumption increases made as a defense response ; this leads to the production, by an NADH dependent system, of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals."
* Changed definition of GO:0060265 from "Any process that increases the rate, frequency or extent of a phase of elevated metabolic activity, during which oxygen consumption increases made as a defense reponse ; this leads to the production, by an NADH dependent system, of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals." to "Any process that increases the rate, frequency or extent of a phase of elevated metabolic activity, during which oxygen consumption increases made as a defense response ; this leads to the production, by an NADH dependent system, of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals."
* Changed definition of GO:0060266 from "Any process that decreases the rate, frequency or extent of a phase of elevated metabolic activity, during which oxygen consumption increases made as a defense reponse ; this leads to the production, by an NADH dependent system, of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals." to "Any process that decreases the rate, frequency or extent of a phase of elevated metabolic activity, during which oxygen consumption increases made as a defense response ; this leads to the production, by an NADH dependent system, of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals."
* Changed definition of GO:0060297 from "Any process that modulates the rate, frequency or extent myofibril assambly by organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs." to "Any process that modulates the rate, frequency or extent myofibril assembly by organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs."
* Changed definition of GO:0060298 from "Any process that increases the rate, frequency or extent myofibril assambly by organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs." to "Any process that increases the rate, frequency or extent myofibril assembly by organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs."
* Changed definition of GO:0060299 from "Any process that decreases the rate, frequency or extent myofibril assambly by organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs." to "Any process that decreases the rate, frequency or extent myofibril assembly by organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs."