GO Monthly Release Notes for February 2003 ======================== Generated on Mon Oct 27 12:28:58 2003 Files used: component old: 2.296 new: 2.310 function old: 2.581 new: 2.599 process old: 2.657 new: 2.676 definitions old: 2.907 new: 2.936 GO Slim: Generic.0208 Key: |----1----||----2-----||-3--||4||----5----||-----------6-----------| GO:0009941 GO:0009536 TAIR D SF:575119 chloroplast envelope (obs) 1. GO ID number 2. GO-slim term(s) that new term was added under or "obs" if the term is obsolete. Terms with more than one GO-slim parent have further parents listed underneath the first parent. 3. Database that added term 4. indicates the existence of a definition for the term 5. the sourceforge request ID the term was added in response to 6. term name Columns are tab-delimited and can be imported into Excel for ease of reading. New terms in component ontology (31 new terms) GO:0000180 obs SGD D cytosolic large ribosomal subunit GO:0000181 obs SGD D cytosolic small ribosomal subunit GO:0000222 GO:0005623 SGD D plasma membrane hydrogen-transporting ATPase V0 domain GO:0005886 GO:0000223 GO:0005623 SGD D plasma membrane hydrogen-transporting ATPase V1 domain GO:0005886 GO:0000346 GO:0005634 SGD D transcription export complex GO:0000347 GO:0005634 SGD D THO complex GO:0003675 obs OS D protein GO:0005559 obs OS D ribozyme GO:0005561 obs OS D nucleic acid GO:0005562 obs OS D RNA GO:0005564 obs OS D cytosolic tRNA GO:0005565 obs OS D mitochondrial tRNA GO:0005567 obs OS D cytosolic ribosomal RNA GO:0005568 obs OS D mitochondrial rRNA GO:0005571 obs OS D untranslated RNA GO:0005572 obs OS D RNA polymerase II transcribed untranslated RNA GO:0005574 obs OS D DNA GO:0042581 GO:0016023 JL D 665688 specific granule GO:0042582 GO:0005764 JL D 663138 azurophil granule GO:0016023 GO:0042583 GO:0016023 JL D 664377 chromaffin granule GO:0042584 GO:0005623 JL D 664377 chromaffin granule membrane GO:0016023 GO:0042585 GO:0005634 JL D 664985 germinal vesicle GO:0042587 GO:0005737 JL D 665002 glycogen granule GO:0042588 GO:0016023 JL D 665022 zymogen granule GO:0042589 GO:0005623 JL D 665022 zymogen granule membrane GO:0016023 GO:0046858 GO:0005622 AI D 668420 chlorosome GO:0046859 GO:0005737 AI D 671183 hydrogenosomal membrane GO:0046860 GO:0005737 AI D 665004 glycosome membrane GO:0046861 GO:0005737 AI D 671148 glyoxysomal membrane GO:0046862 GO:0009536 AI D 663192 chromoplast membrane GO:0046868 GO:0005886 AI D 669010 mesosome Term name changes in component ontology GO:0005901: caveolae --> caveola GO:0015627: type II protein (Sec) secretion system complex --> type II protein secretion system complex New definitions for component ontology terms (10 new definitions) GO:0005766, primary lysosome GO:0005767, secondary lysosome GO:0005885, Arp2/3 protein complex GO:0005901, caveola GO:0009317, acetyl-CoA carboxylase complex GO:0009329, acetate CoA-transferase complex GO:0009929, cell surface (sensu Magnoliophyta) GO:0015629, actin cytoskeleton GO:0015630, microtubule cytoskeleton GO:0016599, caveolar membrane Term movements in component ontology: Terms movements under GO Slim term 'cytoplasm ; GO:0005737' + GO:0009317, acetyl-CoA carboxylase complex + GO:0009329, acetate CoA-transferase complex + GO:0009343, biotin carboxylase complex Terms movements under GO Slim term 'unlocalized ; GO:0005941' - GO:0009317, acetyl-CoA carboxylase complex - GO:0009329, acetate CoA-transferase complex - GO:0009343, biotin carboxylase complex New terms in function ontology (16 new terms) GO:0000035 GO:0005488 SGD D acyl binding GO:0000906 GO:0003824 SGD D 686299 6,7-dimethyl-8-ribityllumazine synthase GO:0000907 GO:0003824 SGD D 686297 sulfonate dioxygenase GO:0000908 GO:0003824 SGD D 686297 taurine dioxygenase GO:0001735 GO:0003824 MGI D prenylcysteine oxidase GO:0005082 GO:0004871 OS D receptor signaling protein tyrosine phosphatase signaling protein GO:0008018 obs FB D structural protein of chorion (sensu Drosophila) GO:0008500 obs FB D glycine-, glutamate-, thienylcyclohexylpiperidine binding GO:0015047 GO:0003824 FB D NADPH-cytochrome c2 reductase GO:0018602 GO:0003824 FB D 2,4-dichlorophenoxyacetate alpha-ketoglutarate dioxygenase GO:0042586 GO:0003824 JL D 689399 peptide deformylase GO:0046863 GO:0030234 AI D 681745 ribulose-1,5-bisphosphate carboxylase/oxygenase activase GO:0046870 GO:0005488 AI D cadmium ion binding GO:0046871 GO:0030246 AI D 685367 N-acetylgalactosamine binding GO:0046872 GO:0005488 AI D metal ion binding GO:0046873 GO:0005215 AI D metal ion transporter New obsoletions in function ontology GO:0000039, plasma membrane long-chain fatty acid transporter: describes a gene product and it contains component information. GO:0001577, galectin: refers to a class of gene products. GO:0003694, plasmid binding: refers to component information. GO:0003791, membrane associated actin binding: contains both component and function information. GO:0004005, plasma membrane cation-transporting ATPase: contains both component and function information. GO:0004212, lysosomal cysteine-type endopeptidase: contains both component and function information. GO:0004241, alpha-mitochondrial processing peptidase: represents a gene product. GO:0004242, beta-mitochondrial processing peptidase: represents a gene product. GO:0004258, vacuolar carboxypeptidase Y: contains both component and function information. GO:0004384, membrane-associated guanylate kinase: represents a gene product and not a function. GO:0005180, peptide hormone: describes a type of hormone rather than a molecular function. GO:0005181, glycopeptide hormone: describes a type of hormone rather than a molecular function. GO:0005182, lipopeptide hormone: describes a type of hormone rather than a molecular function. GO:0005240, glycine receptor-associated protein: does not describe a molecular function. GO:0005376, plasma membrane copper transporter: contains both component and function information. GO:0005377, intracellular copper ion transporter: contains both component and function information. GO:0005400, peroxisomal membrane transporter: contains both component and function information. GO:0005508, copper/cadmium binding: represents a composite function. GO:0005530, lectin: refers to a class of gene products. GO:0005531, galactose binding lectin: refers to a class of gene products. GO:0005532, mannose binding lectin: refers to a class of gene products. GO:0005533, N-acetylgalactosamine lectin: refers to a class of gene products. GO:0008042, iron-sulfur electron transfer carrier: refers to a class of gene products. GO:0008246, electron transfer flavoprotein: refers to a class of gene products. GO:0008563, alpha-factor sex pheromone exporter: this function does not exist. Alpha-factor is secreted by the classical secretion pathway and not exported. GO:0009481, aa3-type cytochrome c oxidase: describes a class of gene products rather than a molecular function. GO:0009482, ba3-type cytochrome c oxidase: describes a class of gene products rather than a molecular function. GO:0009483, caa3-type cytochrome c oxidase: describes a class of gene products rather than a molecular function. GO:0009485, cbb3-type cytochrome c oxidase: describes a class of gene products rather than a molecular function. GO:0009490, mononuclear iron electron carrier: refers to a class of gene products. GO:0009491, redox-active disulfide bond electron carrier: refers to a class of gene products. GO:0009492, Fe2S2 electron transfer carrier: refers to a class of gene products. GO:0009497, Fe3S4/Fe4S4 electron transfer carrier: refers to a class of gene products. GO:0015001, high-potential iron-sulfur carrier: refers to a class of gene products. GO:0015003, copper electron carrier: refers to a class of gene products. GO:0015007, electron carrier, chlorophyll electron transport system: contains both process and function information. GO:0015025, GPI-anchored membrane-bound receptor: contains both component and function information. GO:0015040, electron transfer flavoprotein, group I: refers to a class of gene products. GO:0015041, electron transfer flavoprotein, group II: refers to a class of gene products. GO:0015176, holin: represents a class of gene products. GO:0015429, peroxisomal fatty acyl transporter: describes a gene product and it contains both component and function information. GO:0015461, endosomal oligosaccharide transporter: contains both component and function information. GO:0015468, colicin: represents a class of gene products. GO:0015479, outer membrane exporter porin: contains both component and function information. GO:0015644, lipoprotein antitoxin: does not represent a function distinct from its parent term. GO:0015933, flavin-containing electron transporter: does not describe a molecular function. GO:0017029, lysosomal protein stabilization: contains both component and function information. GO:0017135, membrane-associated protein with guanylate kinase activity interacting: does not represent a molecular function and the term name appears to make no sense. GO:0019040, viral host shutoff protein: does not represent a molecular function. GO:0030051, FK506-sensitive peptidyl-prolyl cis-trans isomerase: represents a gene product and not a function. Annotate to the molecular function terms 'FK506 binding ; GO:0005528' and 'peptidyl-prolyl cis-trans isomerase ; GO:0003755'. GO:0042141, mating pheromone exporter: is too gene product specific. Term name changes in function ontology GO:0000287: magnesium binding --> magnesium ion binding GO:0003694: plasmid-associated protein --> plasmid binding GO:0004250: vacuolar aminopeptidase I --> aminopeptidase I GO:0005377: intracellular copper transporter --> intracellular copper ion transporter GO:0005381: iron transporter --> iron ion transporter GO:0005382: transmembrane iron permease --> transmembrane iron ion permease GO:0005506: iron binding --> iron ion binding GO:0005507: copper binding --> copper ion binding GO:0005533: N-acetyl-galactosamine lectin --> N-acetylgalactosamine lectin GO:0008270: zinc binding --> zinc ion binding GO:0008701: 4-hydroxy-2-oxovalerate/4-hydroxy-2-keto-pentanoic acid aldolase --> 4-hydroxy-2-oxovalerate aldolase GO:0015079: potassium transporter --> potassium ion transporter GO:0015080: silver transporter --> silver ion transporter GO:0015081: sodium transporter --> sodium ion transporter GO:0015089: high affinity copper transporter --> high affinity copper ion transporter GO:0015090: low affinity iron transporter --> low affinity iron ion transporter GO:0016151: nickel binding --> nickel ion binding GO:0030145: manganese binding --> manganese ion binding GO:0030151: molybdenum binding --> molybdenum ion binding GO:0045340: mercury binding --> mercury ion binding New definitions for function ontology terms (54 new definitions) GO:0000039, plasma membrane long-chain fatty acid transporter GO:0003694, plasmid binding GO:0003791, membrane associated actin binding GO:0004005, plasma membrane cation-transporting ATPase GO:0004007, heavy metal-exporting ATPase GO:0004212, lysosomal cysteine-type endopeptidase GO:0004241, alpha-mitochondrial processing peptidase GO:0004242, beta-mitochondrial processing peptidase GO:0004244, mitochondrial inner membrane peptidase GO:0005180, peptide hormone GO:0005181, glycopeptide hormone GO:0005182, lipopeptide hormone GO:0005240, glycine receptor-associated protein GO:0005342, organic acid transporter GO:0005373, heavy metal ion porter GO:0005375, copper ion transporter GO:0005376, plasma membrane copper transporter GO:0005377, intracellular copper ion transporter GO:0005381, iron ion transporter GO:0005400, peroxisomal membrane transporter GO:0005502, 11-cis retinal binding GO:0005503, all-trans retinal binding GO:0005508, copper/cadmium binding GO:0005530, lectin GO:0005531, galactose binding lectin GO:0005532, mannose binding lectin GO:0005533, N-acetylgalactosamine lectin GO:0008514, organic anion transporter GO:0009491, redox-active disulfide bond electron carrier GO:0009492, Fe2S2 electron transfer carrier GO:0009497, Fe3S4/Fe4S4 electron transfer carrier GO:0015001, high-potential iron-sulfur carrier GO:0015025, GPI-anchored membrane-bound receptor GO:0015076, heavy metal ion transporter GO:0015077, monovalent inorganic cation transporter GO:0015079, potassium ion transporter GO:0015080, silver ion transporter GO:0015081, sodium ion transporter GO:0015082, di-, tri-valent inorganic cation transporter GO:0015083, aluminum ion transporter GO:0015094, lead ion transporter GO:0015097, mercury ion transporter GO:0015098, molybdate ion transporter GO:0015099, nickel ion transporter GO:0015100, vanadium ion transporter GO:0015101, organic cation transporter GO:0015103, inorganic anion transporter GO:0015429, peroxisomal fatty acyl transporter GO:0015461, endosomal oligosaccharide transporter GO:0015479, outer membrane exporter porin GO:0015607, fatty acyl CoA transporter GO:0016918, retinal binding GO:0017029, lysosomal protein stabilization GO:0019040, viral host shutoff protein New term merges in function ontology GO:0008799 has been merged into GO:0004121, cystathionine beta-lyase GO:0016033 has been merged into GO:0005381, iron ion transporter GO:0030230 has been merged into GO:0004767, sphingomyelin phosphodiesterase GO:0030231 has been merged into GO:0004767, sphingomyelin phosphodiesterase Term movements in function ontology: Terms movements under GO Slim term 'nucleotide binding ; GO:0000166' - GO:0004005, plasma membrane cation-transporting ATPase - GO:0005325, peroxisomal fatty acyl CoA transporter - GO:0008563, alpha-factor sex pheromone exporter - GO:0015429, peroxisomal fatty acyl transporter - GO:0042141, mating pheromone exporter Terms movements under GO Slim term 'DNA binding ; GO:0003677' - GO:0003694, plasmid binding Terms movements under GO Slim term 'RNA binding ; GO:0003723' - GO:0019040, viral host shutoff protein Terms movements under GO Slim term 'actin binding ; GO:0003779' - GO:0003791, membrane associated actin binding Terms movements under GO Slim term 'defense/immunity protein ; GO:0003793' - GO:0015644, lipoprotein antitoxin Terms movements under GO Slim term 'enzyme ; GO:0003824' - GO:0004005, plasma membrane cation-transporting ATPase - GO:0004384, membrane-associated guanylate kinase - GO:0005325, peroxisomal fatty acyl CoA transporter - GO:0008563, alpha-factor sex pheromone exporter - GO:0009481, aa3-type cytochrome c oxidase - GO:0009482, ba3-type cytochrome c oxidase - GO:0009483, caa3-type cytochrome c oxidase - GO:0009485, cbb3-type cytochrome c oxidase - GO:0015429, peroxisomal fatty acyl transporter - GO:0030051, FK506-sensitive peptidyl-prolyl cis-trans isomerase - GO:0042141, mating pheromone exporter Terms movements under GO Slim term 'nuclease ; GO:0004518' - GO:0019040, viral host shutoff protein Terms movements under GO Slim term 'signal transducer ; GO:0004871' - GO:0005240, glycine receptor-associated protein Terms movements under GO Slim term 'receptor ; GO:0004872' - GO:0015025, GPI-anchored membrane-bound receptor Terms movements under GO Slim term 'receptor binding ; GO:0005102' - GO:0005180, peptide hormone - GO:0005181, glycopeptide hormone - GO:0005182, lipopeptide hormone Terms movements under GO Slim term 'cell adhesion molecule ; GO:0005194' - GO:0004384, membrane-associated guanylate kinase Terms movements under GO Slim term 'structural molecule ; GO:0005198' - GO:0015468, colicin Terms movements under GO Slim term 'transporter ; GO:0005215' - GO:0000039, plasma membrane long-chain fatty acid transporter - GO:0004005, plasma membrane cation-transporting ATPase - GO:0005240, glycine receptor-associated protein - GO:0005376, plasma membrane copper transporter - GO:0005377, intracellular copper ion transporter - GO:0005400, peroxisomal membrane transporter - GO:0008042, iron-sulfur electron transfer carrier - GO:0008563, alpha-factor sex pheromone exporter - GO:0009481, aa3-type cytochrome c oxidase - GO:0009482, ba3-type cytochrome c oxidase - GO:0009483, caa3-type cytochrome c oxidase - GO:0009485, cbb3-type cytochrome c oxidase - GO:0009490, mononuclear iron electron carrier - GO:0009491, redox-active disulfide bond electron carrier - GO:0009492, Fe2S2 electron transfer carrier - GO:0009497, Fe3S4/Fe4S4 electron transfer carrier - GO:0015001, high-potential iron-sulfur carrier - GO:0015003, copper electron carrier - GO:0015007, electron carrier, chlorophyll electron transport system - GO:0015176, holin - GO:0015429, peroxisomal fatty acyl transporter - GO:0015461, endosomal oligosaccharide transporter - GO:0015468, colicin - GO:0015479, outer membrane exporter porin - GO:0042141, mating pheromone exporter Terms movements under GO Slim term 'binding ; GO:0005488' - GO:0005508, copper/cadmium binding - GO:0015644, lipoprotein antitoxin - GO:0030051, FK506-sensitive peptidyl-prolyl cis-trans isomerase Terms movements under GO Slim term 'electron transporter ; GO:0005489' - GO:0008042, iron-sulfur electron transfer carrier - GO:0008246, electron transfer flavoprotein - GO:0009490, mononuclear iron electron carrier - GO:0009491, redox-active disulfide bond electron carrier - GO:0009492, Fe2S2 electron transfer carrier - GO:0009497, Fe3S4/Fe4S4 electron transfer carrier - GO:0015001, high-potential iron-sulfur carrier - GO:0015003, copper electron carrier - GO:0015007, electron carrier, chlorophyll electron transport system - GO:0015040, electron transfer flavoprotein, group I - GO:0015041, electron transfer flavoprotein, group II - GO:0015933, flavin-containing electron transporter Terms movements under GO Slim term 'protein binding ; GO:0005515' - GO:0017135, membrane-associated protein with guanylate kinase activity interacting Terms movements under GO Slim term 'peptidase ; GO:0008233' - GO:0004212, lysosomal cysteine-type endopeptidase - GO:0004241, alpha-mitochondrial processing peptidase - GO:0004242, beta-mitochondrial processing peptidase - GO:0004258, vacuolar carboxypeptidase Y Terms movements under GO Slim term 'lysin ; GO:0015465' - GO:0015176, holin - GO:0015468, colicin Terms movements under GO Slim term 'protein stabilization ; GO:0017028' - GO:0017029, lysosomal protein stabilization Terms movements under GO Slim term 'carbohydrate binding ; GO:0030246' - GO:0001577, galectin - GO:0005530, lectin - GO:0005531, galactose binding lectin - GO:0005532, mannose binding lectin - GO:0005533, N-acetylgalactosamine lectin New terms in process ontology (50 new terms) GO:0001736 GO:0007010 MGI D 688606 establishment of planar polarity GO:0007275 GO:0001737 GO:0007010 MGI D 688606 establishment of wing hair orientation GO:0007275 GO:0001738 GO:0007275 MGI D 688606 morphogenesis of a polarized epithelium GO:0006264 GO:0006259 OS D mitochondrial DNA replication GO:0007049 GO:0007081 obs OS D mitotic sister-chromatid adhesion release GO:0007083 GO:0007049 OS D mitotic chromosome decondensation GO:0007235 obs OS D activation of Ypd1 protein GO:0007236 obs OS D activation of Ssk1 protein GO:0007237 obs OS D activation of Ssk2/Ssk22 proteins GO:0007238 obs OS D activation of Pbs2 GO:0007239 obs OS D activation of Hog1 GO:0007240 obs OS D nuclear translocation of Hog1 GO:0007241 obs OS D inactivation of Hog1 GO:0007336 obs OS D bilateral process GO:0007337 obs OS D unilateral process GO:0008085 obs FB D phototransduction, visible light, light adaptation GO:0008101 GO:0007165 FB D dpp receptor signaling pathway GO:0008155 obs FB D larval behavior (sensu Drosophila) GO:0009987 GO:0008150 TAIR D cellular process GO:0009988 GO:0008037 TAIR D cell-cell recognition GO:0009989 GO:0008037 TAIR D cell-matrix recognition GO:0009990 GO:0008037 TAIR D contact guidance GO:0009991 GO:0007154 TAIR D response to extracellular stimulus GO:0009605 GO:0009992 GO:0019725 TAIR D cellular osmoregulation GO:0009993 GO:0000003 TAIR D oogenesis (sensu Insecta) GO:0009994 GO:0000003 TAIR D oocyte differentiation GO:0030154 GO:0009995 GO:0008150 TAIR D soluble molecule recognition GO:0009605 GO:0009996 GO:0030154 TAIR D 689561 suppression of cell fate GO:0009997 GO:0030154 TAIR D 689561 suppression of cardioblast cell fate GO:0009998 GO:0030154 TAIR D 689561 suppression of retinal cone cell fate GO:0009999 GO:0030154 TAIR D 689561 suppression of hair cell fate GO:0010000 GO:0030154 TAIR D 689561 suppression of cone cell fate (sensu Drosophila) GO:0010001 GO:0030154 TAIR D 689561 glial cell differentiation GO:0010002 GO:0030154 TAIR D 689561 cardioblast differentiation GO:0010003 GO:0007275 TAIR D 689561 gastrulation (sensu Mammalia) GO:0010004 GO:0007275 TAIR D 689561 gastrulation (sensu Insecta) GO:0015849 GO:0006810 FB D organic acid transport GO:0017038 GO:0015031 FB D protein import GO:0018176 GO:0006464 FB D protein adenylation GO:0018341 GO:0006464 FB D peptidyl-N6-pyruvic acid 2-iminyl-L-lysine biosynthesis GO:0018367 obs FB D free L-amino acid racemization GO:0019805 GO:0008152 FB D quinolinate biosynthesis GO:0009058 GO:0042590 GO:0009607 JL D 617897 antigen presentation, exogenous antigen via MHC class I GO:0042591 GO:0009607 JL D 617897 antigen presentation, exogenous antigen via MHC class II GO:0046864 GO:0006810 AI D 680181 isoprenoid transport GO:0046865 GO:0006810 AI D 680181 terpenoid transport GO:0046866 GO:0006810 AI D 680181 tetraterpenoid transport GO:0046867 GO:0006810 AI D 680181 carotenoid transport GO:0046869 GO:0006464 AI D iron incorporation into iron-sulfur cluster via tris-L-cysteinyl-L-aspartato diiron disulfide GO:0046874 GO:0008152 AI D quinolinate metabolism New obsoletions in process ontology GO:0006889, regulation of calcium in ER: the term name is ambiguous and as a result, the term was incorrectly placed in the ontology (it was a descendant of 'protein transport'). GO:0045783, negative regulation of calcium in ER: the term name is ambiguous and as a result, the term was incorrectly placed in the ontology (it was a descendant of 'protein transport'). GO:0045784, positive regulation of calcium in ER: the term name is ambiguous and as a result, the term was incorrectly placed in the ontology (it was a descendant of 'protein transport'). Term name changes in process ontology GO:0000040: low affinity iron transport --> low affinity iron ion transport GO:0000041: transition metal transport --> transition metal ion transport GO:0006813: potassium transport --> potassium ion transport GO:0006814: sodium transport --> sodium ion transport GO:0006826: iron transport --> iron ion transport GO:0006827: high affinity iron transport --> high affinity iron ion transport GO:0006852: mitochondrial sodium/calcium exchange --> mitochondrial sodium/calcium ion exchange GO:0006876: cadmium homeostasis --> cadmium ion homeostasis GO:0006877: cobalt homeostasis --> cobalt ion homeostasis GO:0006878: copper homeostasis --> copper ion homeostasis GO:0006879: iron homeostasis --> iron ion homeostasis GO:0006880: intracellular iron storage --> intracellular iron ion storage GO:0006881: extracellular iron storage --> extracellular iron ion storage GO:0006882: zinc homeostasis --> zinc ion homeostasis GO:0007400: neuroblast determination --> neuroblast cell fate determination GO:0007510: cardioblast determination --> cardioblast cell fate determination GO:0007514: garland cell development --> garland cell differentiation GO:0007518: myoblast determination --> myoblast cell fate determination GO:0009836: ripening (climacteric type) --> ripening, climacteric GO:0009837: ripening (non-climacteric type) --> ripening, non-climacteric GO:0015673: silver transport --> silver ion transport GO:0015677: copper uptake transport --> copper ion import GO:0015678: high affinity copper transport --> high affinity copper ion transport GO:0015679: plasma membrane copper transport --> plasma membrane copper ion transport GO:0015680: intracellular copper delivery --> intracellular copper ion transport GO:0015683: high affinity ferric transport --> high affinity ferric iron transport GO:0030026: manganese homeostasis --> manganese ion homeostasis GO:0046686: response to cadmium --> response to cadmium ion GO:0046688: response to copper --> response to copper ion GO:0046689: response to mercuric --> response to mercury ion GO:0046690: response to tellurium --> response to tellurium ion New definitions for process ontology terms (35 new definitions) GO:0000041, transition metal ion transport GO:0000054, ribosome nucleus export GO:0006607, NLS-bearing substrate-nucleus import GO:0006608, snRNP protein-nucleus import GO:0006610, ribosomal protein-nucleus import GO:0006811, ion transport GO:0006812, cation transport GO:0006813, potassium ion transport GO:0006814, sodium ion transport GO:0006816, calcium ion transport GO:0006820, anion transport GO:0006824, cobalt ion transport GO:0006825, copper ion transport GO:0006826, iron ion transport GO:0006828, manganese ion transport GO:0006829, zinc ion transport GO:0007036, vacuolar calcium ion homeostasis GO:0015672, monovalent inorganic cation transport GO:0015673, silver ion transport GO:0015674, di-, tri-valent inorganic cation transport GO:0015675, nickel ion transport GO:0015676, vanadium ion transport GO:0015677, copper ion import GO:0015679, plasma membrane copper ion transport GO:0015680, intracellular copper ion transport GO:0015689, molybdate ion transport GO:0015690, aluminum ion transport GO:0015691, cadmium ion transport GO:0015692, lead ion transport GO:0015693, magnesium ion transport GO:0015694, mercury ion transport GO:0015695, organic cation transport GO:0015910, peroxisomal long-chain fatty acid import GO:0015911, plasma membrane long-chain fatty acid transport GO:0030001, metal ion transport New term merges in process ontology GO:0015681 has been merged into GO:0006826, iron ion transport Term movements in process ontology: Terms movements under GO Slim term 'reproduction ; GO:0000003' + GO:0000282, bud site selection + GO:0007114, budding + GO:0007116, regulation of budding + GO:0007117, bud growth + GO:0007118, apical bud growth + GO:0007119, isotropic bud growth + GO:0007120, axial budding + GO:0007121, polar budding + GO:0007122, loss of asymmetric budding + GO:0007123, bud scar accumulation - GO:0007280, pole cell migration + GO:0045781, negative regulation of budding + GO:0045782, positive regulation of budding Terms movements under GO Slim term 'transport ; GO:0006810' - GO:0006889, regulation of calcium in ER - GO:0045783, negative regulation of calcium in ER - GO:0045784, positive regulation of calcium in ER Terms movements under GO Slim term 'ion transport ; GO:0006811' + GO:0045016, mitochondrial magnesium ion transport Terms movements under GO Slim term 'cytoskeleton organization and biogenesis ; GO:0007010' + GO:0042247, establishment of polarity of follicular epithelium + GO:0042249, establishment of polarity of embryonic epithelium + GO:0042252, establishment of polarity of larval imaginal disc epithelium Terms movements under GO Slim term 'cell communication ; GO:0007154' + GO:0001560, interpretation of external signals that regulate cell growth + GO:0009432, SOS response + GO:0042262, DNA protection Terms movements under GO Slim term 'development ; GO:0007275' - GO:0001708, cell fate specification - GO:0001709, cell fate determination - GO:0001710, mesoderm cell fate commitment - GO:0001711, endoderm cell fate commitment - GO:0001712, ectoderm cell fate commitment - GO:0001714, endoderm cell fate specification - GO:0001715, ectoderm cell fate specification - GO:0007438, oenocyte development - GO:0007501, mesoderm cell fate specification - GO:0007510, cardioblast cell fate determination - GO:0007511, dorsal vessel development - GO:0009844, germination - GO:0009845, seed germination - GO:0009846, pollen germination - GO:0009847, spore germination - GO:0009912, hair cell fate commitment - GO:0009957, epidermal cell fate specification - GO:0045165, cell fate commitment - GO:0045166, protein secretion involved in cell fate commitment - GO:0045167, asymmetric protein localization involved in cell fate commitment - GO:0045168, cell-cell signaling involved in cell fate commitment - GO:0046331, lateral inhibition - GO:0046530, photoreceptor differentiation - GO:0046531, photoreceptor morphogenesis - GO:0046552, photoreceptor commitment Terms movements under GO Slim term 'physiological processes ; GO:0007582' - GO:0006035, cuticle chitin biosynthesis - GO:0006723, cuticle hydrocarbon biosynthesis - GO:0007590, fat body metabolism (sensu Insecta) - GO:0007592, cuticle biosynthesis (sensu Invertebrata) - GO:0008362, embryonic cuticle biosynthesis (sensu Insecta) - GO:0008365, adult cuticle biosynthesis (sensu Insecta) - GO:0015032, storage protein uptake - GO:0040002, cuticle biosynthesis (sensu Nematoda) - GO:0040003, cuticle biosynthesis (sensu Insecta) - GO:0042335, cuticle biosynthesis Terms movements under GO Slim term 'cell recognition ; GO:0008037' - GO:0007411, axon guidance - GO:0008045, motor axon guidance - GO:0030516, regulation of axon extension - GO:0030517, negative regulation of axon extension - GO:0045773, positive regulation of axon extension Terms movements under GO Slim term 'biological_process ; GO:0008150' + GO:0000740, nuclear membrane fusion + GO:0000741, karyogamy + GO:0000742, karyogamy during conjugation with cellular fusion + GO:0000743, nuclear migration during conjugation with cellular fusion + GO:0000744, karyogamy during conjugation without cellular fusion + GO:0000745, nuclear exchange during conjugation without cellular fusion + GO:0000755, cytogamy + GO:0000768, syncytium formation by plasma membrane fusion + GO:0001539, ciliary/flagellar motility + GO:0001667, ameboid cell migration + GO:0006928, cell motility + GO:0006929, substrate-bound cell migration + GO:0006930, substrate-bound cell migration, cell extension + GO:0006931, substrate-bound cell migration, cell attachment to substrate + GO:0006932, substrate-bound cell migration, cell contraction + GO:0006933, substrate-bound cell migration, cell release, from substrate + GO:0006934, substrate-bound cell migration, adhesion receptor recycling + GO:0006935, chemotaxis + GO:0006936, muscle contraction + GO:0006937, regulation of muscle contraction + GO:0006938, sarcomere alignment + GO:0006939, smooth muscle contraction + GO:0006940, regulation of smooth muscle contraction + GO:0006941, striated muscle contraction + GO:0006942, regulation of striated muscle contraction + GO:0006944, membrane fusion + GO:0006948, viral-induced cell-cell fusion + GO:0007280, pole cell migration + GO:0007297, follicle cell migration + GO:0007298, border cell migration + GO:0007342, binding/fusion of sperm to egg plasma membrane + GO:0007344, pronuclear fusion + GO:0007395, spreading of leading edge cells + GO:0007411, axon guidance + GO:0007427, tracheal cell migration (sensu Insecta) + GO:0008045, motor axon guidance + GO:0008078, mesoderm cell migration + GO:0008347, glia cell migration + GO:0008354, germ-cell migration + GO:0009453, energy taxis + GO:0009454, aerotaxis + GO:0009455, redox taxis + GO:0016198, axon choice point recognition + GO:0016199, axon midline choice point recognition + GO:0016320, ER fusion + GO:0016477, cell migration + GO:0019064, viral envelope fusion + GO:0030049, muscle filament sliding + GO:0030317, sperm motility + GO:0030334, regulation of cell migration + GO:0030335, positive regulation of cell migration + GO:0030336, negative regulation of cell migration + GO:0030516, regulation of axon extension + GO:0030517, negative regulation of axon extension + GO:0030593, neutrophil chemotaxis + GO:0030595, immune cell chemotaxis + GO:0040039, inductive cell migration + GO:0042074, cell migration during gastrulation + GO:0042330, taxis + GO:0042331, phototaxis + GO:0042332, gravitaxis + GO:0042333, chemotaxis to oxidizable substrate + GO:0042334, taxis to electron acceptor + GO:0045026, plasma membrane fusion + GO:0045123, cellular extravasation + GO:0045773, positive regulation of axon extension + GO:0045932, negative regulation of muscle contraction + GO:0045933, positive regulation of muscle contraction + GO:0045986, negative regulation of smooth muscle contraction + GO:0045987, positive regulation of smooth muscle contraction + GO:0045988, negative regulation of striated muscle contraction + GO:0045989, positive regulation of striated muscle contraction Terms movements under GO Slim term 'cell growth and/or maintenance ; GO:0008151' - GO:0000045, autophagic vacuole formation - GO:0000046, autophagic vacuole fusion - GO:0000190, MAPKKK cascade (pseudohyphal growth) - GO:0000191, activation of MAPKKK (pseudohyphal growth) - GO:0000192, activation of MAPKK (pseudohyphal growth) - GO:0000193, activation of MAPK (pseudohyphal growth) - GO:0000194, inactivation of MAPK (pseudohyphal growth) - GO:0000195, nuclear translocation of MAPK (pseudohyphal growth) - GO:0000740, nuclear membrane fusion - GO:0000741, karyogamy - GO:0000742, karyogamy during conjugation with cellular fusion - GO:0000743, nuclear migration during conjugation with cellular fusion - GO:0000744, karyogamy during conjugation without cellular fusion - GO:0000745, nuclear exchange during conjugation without cellular fusion - GO:0000753, cellular morphogenesis during conjugation with cellular fusion - GO:0000755, cytogamy - GO:0000759, cellular morphogenesis during conjugation without cellular fusion - GO:0000763, cellular morphogenesis during unidirectional conjugation - GO:0000764, cellular morphogenesis during pheromone-induced unidirectional conjugation - GO:0000767, cellular morphogenesis during conjugation - GO:0000902, cellular morphogenesis - GO:0000903, cellular morphogenesis during vegetative growth - GO:0000904, cellular morphogenesis during differentiation - GO:0001539, ciliary/flagellar motility - GO:0001667, ameboid cell migration - GO:0006914, autophagy - GO:0006928, cell motility - GO:0006929, substrate-bound cell migration - GO:0006930, substrate-bound cell migration, cell extension - GO:0006931, substrate-bound cell migration, cell attachment to substrate - GO:0006932, substrate-bound cell migration, cell contraction - GO:0006933, substrate-bound cell migration, cell release, from substrate - GO:0006934, substrate-bound cell migration, adhesion receptor recycling - GO:0006935, chemotaxis - GO:0006936, muscle contraction - GO:0006937, regulation of muscle contraction - GO:0006938, sarcomere alignment - GO:0006939, smooth muscle contraction - GO:0006940, regulation of smooth muscle contraction - GO:0006941, striated muscle contraction - GO:0006942, regulation of striated muscle contraction - GO:0006944, membrane fusion - GO:0007124, pseudohyphal growth - GO:0007125, invasive growth - GO:0007149, colony morphology - GO:0007150, growth pattern - GO:0007280, pole cell migration - GO:0007297, follicle cell migration - GO:0007298, border cell migration - GO:0007342, binding/fusion of sperm to egg plasma membrane - GO:0007344, pronuclear fusion + GO:0007349, cellularization - GO:0007394, elongation of leading edge cells - GO:0007427, tracheal cell migration (sensu Insecta) - GO:0008078, mesoderm cell migration - GO:0008347, glia cell migration - GO:0008354, germ-cell migration - GO:0008360, regulation of cell shape - GO:0008361, regulation of cell size - GO:0009453, energy taxis - GO:0009454, aerotaxis - GO:0009455, redox taxis + GO:0009796, cellularization (sensu Animalia) + GO:0009797, cellularization (sensu Magnoliophyta) - GO:0009825, cell expansion - GO:0009826, cell elongation - GO:0009831, cell wall modification during cell expansion (sensu Magnoliophyta) - GO:0016236, macroautophagy - GO:0016237, microautophagy - GO:0016238, chaperone-mediated autophagy - GO:0016239, positive regulation of macroautophagy - GO:0016240, autophagic vacuole docking - GO:0016241, regulation of macroautophagy - GO:0016242, negative regulation of macroautophagy - GO:0016243, regulation of autophagic vacuole size - GO:0016320, ER fusion - GO:0016476, shape changes of embryonic cells - GO:0016477, cell migration - GO:0019064, viral envelope fusion - GO:0030049, muscle filament sliding - GO:0030317, sperm motility - GO:0030334, regulation of cell migration - GO:0030335, positive regulation of cell migration - GO:0030336, negative regulation of cell migration - GO:0030399, autophagic membrane degradation - GO:0030447, filamentous growth - GO:0030448, hyphal growth - GO:0030593, neutrophil chemotaxis - GO:0030595, immune cell chemotaxis - GO:0040039, inductive cell migration - GO:0042074, cell migration during gastrulation - GO:0042330, taxis - GO:0042331, phototaxis - GO:0042332, gravitaxis - GO:0042333, chemotaxis to oxidizable substrate - GO:0042334, taxis to electron acceptor - GO:0042547, cell wall modification during cell expansion - GO:0045026, plasma membrane fusion - GO:0045123, cellular extravasation - GO:0045311, filamentous growth in response to pheromones - GO:0045771, negative regulation of autophagic vacuole size - GO:0045772, positive regulation of autophagic vacuole size - GO:0045788, negative regulation of cell shape - GO:0045789, positive regulation of cell shape - GO:0045792, negative regulation of cell size - GO:0045793, positive regulation of cell size - GO:0045932, negative regulation of muscle contraction - GO:0045933, positive regulation of muscle contraction - GO:0045986, negative regulation of smooth muscle contraction - GO:0045987, positive regulation of smooth muscle contraction - GO:0045988, negative regulation of striated muscle contraction - GO:0045989, positive regulation of striated muscle contraction Terms movements under GO Slim term 'metabolism ; GO:0008152' + GO:0000045, autophagic vacuole formation + GO:0000046, autophagic vacuole fusion + GO:0006914, autophagy + GO:0016236, macroautophagy + GO:0016237, microautophagy + GO:0016238, chaperone-mediated autophagy + GO:0016239, positive regulation of macroautophagy + GO:0016240, autophagic vacuole docking + GO:0016241, regulation of macroautophagy + GO:0016242, negative regulation of macroautophagy + GO:0016243, regulation of autophagic vacuole size + GO:0030399, autophagic membrane degradation + GO:0045771, negative regulation of autophagic vacuole size + GO:0045772, positive regulation of autophagic vacuole size Terms movements under GO Slim term 'cell proliferation ; GO:0008283' + GO:0040016, embryonic cleavage Terms movements under GO Slim term 'protein transport ; GO:0015031' - GO:0006889, regulation of calcium in ER - GO:0045783, negative regulation of calcium in ER - GO:0045784, positive regulation of calcium in ER Terms movements under GO Slim term 'cell organization and biogenesis ; GO:0016043' + GO:0000190, MAPKKK cascade (pseudohyphal growth) + GO:0000191, activation of MAPKKK (pseudohyphal growth) + GO:0000192, activation of MAPKK (pseudohyphal growth) + GO:0000193, activation of MAPK (pseudohyphal growth) + GO:0000194, inactivation of MAPK (pseudohyphal growth) + GO:0000195, nuclear translocation of MAPK (pseudohyphal growth) + GO:0000753, cellular morphogenesis during conjugation with cellular fusion + GO:0000759, cellular morphogenesis during conjugation without cellular fusion + GO:0000763, cellular morphogenesis during unidirectional conjugation + GO:0000764, cellular morphogenesis during pheromone-induced unidirectional conjugation + GO:0000767, cellular morphogenesis during conjugation + GO:0000902, cellular morphogenesis + GO:0000903, cellular morphogenesis during vegetative growth + GO:0000904, cellular morphogenesis during differentiation + GO:0007124, pseudohyphal growth + GO:0007125, invasive growth + GO:0007149, colony morphology + GO:0007150, growth pattern + GO:0007394, elongation of leading edge cells + GO:0008360, regulation of cell shape + GO:0008361, regulation of cell size + GO:0009825, cell expansion + GO:0009826, cell elongation + GO:0016476, shape changes of embryonic cells + GO:0030447, filamentous growth + GO:0030448, hyphal growth + GO:0045311, filamentous growth in response to pheromones + GO:0045788, negative regulation of cell shape + GO:0045789, positive regulation of cell shape + GO:0045792, negative regulation of cell size + GO:0045793, positive regulation of cell size Terms movements under GO Slim term 'protein metabolism ; GO:0019538' - GO:0006889, regulation of calcium in ER - GO:0045783, negative regulation of calcium in ER - GO:0045784, positive regulation of calcium in ER Terms movements under GO Slim term 'homeostasis ; GO:0019725' - GO:0001659, thermoregulation - GO:0001660, fever - GO:0042309, homoiothermy Terms movements under GO Slim term 'cell differentiation ; GO:0030154' + GO:0001556, oocyte maturation + GO:0001675, acrosome formation + GO:0001708, cell fate specification + GO:0001709, cell fate determination + GO:0001710, mesoderm cell fate commitment + GO:0001711, endoderm cell fate commitment + GO:0001712, ectoderm cell fate commitment + GO:0001713, ectoderm cell fate determination + GO:0001714, endoderm cell fate specification + GO:0001715, ectoderm cell fate specification + GO:0007278, pole cell determination + GO:0007286, spermatid development + GO:0007287, Nebenkern formation + GO:0007288, axoneme assembly + GO:0007289, spermatid nuclear differentiation + GO:0007290, spermatid nuclear elongation + GO:0007291, sperm individualization + GO:0007393, leading edge cell fate determination + GO:0007400, neuroblast cell fate determination + GO:0007402, determination of ganglion mother cell fate + GO:0007403, determination of glial fate + GO:0007425, tracheal cell fate determination (sensu Insecta) + GO:0007438, oenocyte development + GO:0007466, cone cell fate commitment (sensu Drosophila) + GO:0007493, endoderm cell fate determination + GO:0007500, mesoderm cell fate determination + GO:0007501, mesoderm cell fate specification + GO:0007510, cardioblast cell fate determination + GO:0007511, dorsal vessel development + GO:0007514, garland cell differentiation + GO:0007518, myoblast cell fate determination + GO:0009844, germination + GO:0009845, seed germination + GO:0009846, pollen germination + GO:0009847, spore germination + GO:0009957, epidermal cell fate specification + GO:0016360, determination of sensory organ precursor cell fate + GO:0045034, neuroblast cell division + GO:0045165, cell fate commitment + GO:0045166, protein secretion involved in cell fate commitment + GO:0045167, asymmetric protein localization involved in cell fate commitment + GO:0045168, cell-cell signaling involved in cell fate commitment + GO:0045700, regulation of spermatid nuclear differentiation + GO:0045701, negative regulation of spermatid nuclear differentiation + GO:0045702, positive regulation of spermatid nuclear differentiation + GO:0046331, lateral inhibition + GO:0046845, branch cell fate determination (sensu Insecta) + GO:0046846, tracheal placode cell fate determination (sensu Insecta) SourceForge items closed this month: SF id Resolution SF item title GO ids added, if any 617897 Accepted antigen presentation GO:0042590-42591 623045 Fixed true path problem [none] 627564 Fixed immunoglobulin GO:0042570-42571 653362 None JA biosynthesis & immune response ?? [none] 661069 None axolemma GO:0030673 663138 Accepted azurophil granule GO:0042582 663192 Accepted chromoplast membrane GO:0046862 663725 Fixed cell-associated; cell-bound [none] 664377 Accepted chromaffin granule GO:0042583-42584 664985 Accepted germinal vesicle GO:0042585 665002 Accepted glycogen particle GO:0042587 665004 Accepted glycosome membrane GO:0046860 665022 Accepted zymogen granule, zymogen granule membrane GO:0042588-42589 665688 Accepted specific granule GO:0042581 668450 Works For Me sulfate respiration [none] 669010 Accepted mesosome GO:0046868 669680 Fixed caveolae membrane [none] 671148 Accepted glyoxysomal membrane GO:0046861 671183 Accepted hydrogenosomal membrane GO:0046859 673036 None difference external & extrinsic? [none] 677487 Rejected myrosin grain [none] 677536 Fixed Arp2/3 protein complex binding [none] 679495 Fixed Copper and ion transport [none] 679514 Rejected spherosome [none] 679527 Rejected spheroplast [none] 679628 Rejected viral non structural protein [none] 680095 Rejected 3' mRNA BINDING PROTEIN [none] 680181 Accepted carotenoid transport GO:0046864-46867 681150 None make goid:8799 a synonym for goid:4121 [none] 681240 None obsoleting pheromone exporter terms [none] 681745 Accepted RuBisCO activase GO:0046863 681749 Fixed synonyms for ribulose-bisphosphate carboxylase (GO:0016984) [none] 683974 Works For Me sphingomyelin phosphodiesterases [none] 684638 Accepted particle-bound as synonym of insoluble fraction [none] 684651 Accepted soluble as synonym term for soluble fraction [none] 685207 Fixed %ghdftyhfty ; GO:0042586 [none] 685367 Fixed new function term: glucose binding lectin GO:0046871 685936 Fixed Calcium ion homeostasis [none] 686023 Fixed Terms for obsoletion [none] 686297 Accepted adding children terms to goid:16706 GO:0000907-00908 686299 Accepted add term: 6,7-dimethyl-8-ribityllumazine synthase GO:0000906 688012 None More proposed obsoletions [none] 688555 Fixed iron ion transport synonym [none] 688606 Accepted planar polarity GO:0001736-01738 688681 Fixed Proposed function term obsoletions [none] 689399 Accepted peptide deformylase ; EC 3.5.1.88 GO:0042586 693137 Fixed has GO:0015849 vanished? [none] Statistics: Component: 1191 terms, 73.5% defined (875 terms defined) Function: 5340 terms, 58.4% defined (3117 terms defined) Process: 6940 terms, 80.0% defined (5552 terms defined) Total: 13471 terms, 70.8% defined (9544 terms defined) Term errors GO:0018987, osmoregulation - term lost