[go-diff] GO update 08/08/2007

[Remote CVS for Gene Ontology]

OBODIFF of gene_ontology_edit.obo version 5.444 by 5.448

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0033588
* Created object of type obo:TERM with id GO:0033589
* Created object of type obo:TERM with id GO:0033590
* Populated new object GO:0033588 (macro)
  * Changed name of GO:0033588 from "<new term>" to "Elongator holoenzyme complex"
  * Set definition of GO:0033588 to "A heterohexameric protein complex that is involved in tRNA modification, and exerts indirect effects on transcriptional elongation and exocytosis. The complex can associate physically with hyperphosphorylated RNA polymerase II; it contains two discrete heterotrimeric subcomplexes. In Saccharomyces, the core complex consists of Iki3p/Elp1p, Elp2p, and Elp3p, and the other consists of Elp4p, Iki1p/Elp5p, and Elp6p."
  * Added definition dbxref GOC:mah to GO:0033588
  * Added definition dbxref PMID:11689709 to GO:0033588
  * Added definition dbxref PMID:17018299 to GO:0033588
  * Copied GO:0033588 to GO:0044424 with type OBO_REL:is_a
  * Copied GO:0033588 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0033588
* Populated new object GO:0033589 (macro)
  * Changed name of GO:0033589 from "<new term>" to "Elongator core complex"
  * Set definition of GO:0033589 to "A heterotrimeric protein complex that forms part of the Elongator holoenzyme complex, which is involved in tRNA modification, and exerts indirect effects on transcriptional elongation and exocytosis. In Saccharomyces, the core complex consists of Iki3p/Elp1p, Elp2p, and Elp3p; the proteins are conserved in human."
  * Added definition dbxref GOC:mah to GO:0033589
  * Added definition dbxref PMID:11689709 to GO:0033589
  * Added definition dbxref PMID:17018299 to GO:0033589
  * Copied GO:0033589 to GO:0033588 with type part_of
  * Copied GO:0033589 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0033589
* Populated new object GO:0033590 (macro)
  * Changed name of GO:0033590 from "<new term>" to "response to cobalamin"
  * Set definition of GO:0033590 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 cobalamin (vitamin B12) stimulus."
  * Added definition dbxref GOC:sl to GO:0033590
  * Added synonym "response to vitamin B12" to GO:0033590
  * Changed synonym scope of GO:0033590 from "Related" to "Exact"
  * Copied GO:0033590 to GO:0033273 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033590
* Changed name of GO:0001542 from "ovulation (sensu Mammalia)" to "ovulation from ovarian follicle"
* Changed definition of GO:0001542 from "The process leading to the rupture of the follicle, releasing the centrally located oocyte. As in, but not restricted to, mammals (Mammalia, ncbi_taxonomy_id:40674)." to "The process leading to the rupture of the follicle, releasing the centrally located oocyte into the oviduct."
* Added definition dbxref GOC:mtg_sensu to GO:0001542
* Added synonym "ovulation (sensu Mammalia)" to GO:0001542
* Changed synonym scope of GO:0001542 from "Related" to "Exact"
* Changed name of GO:0001744 from "optic placode formation (sensu Endopterygota)" to "optic lobe placode formation"
* Changed definition of GO:0001744 from "Establishment of the optic placode, a thickened area of densely packed ectoderm cells directly overlying the optic vesicle in the early embryo. In Drosophila for example, the placode appears in the dorsolateral region of the head in late stage 11 embryos and is the precursor to the larval visual system. As in, but not restricted to, the Holometabola (Endopterygota, ncbi_taxonomy_id:33392)." to "Establishment of the optic placode, a thickened area of densely packed ectoderm cells directly overlying the optic vesicle in the early embryo. In Drosophila for example, the placode appears in the dorsolateral region of the head in late stage 11 embryos and is the precursor to the larval visual system."
* Added definition dbxref GOC:mtg_sensu to GO:0001744
* Deleted synonym "optic lobe placode development (sensu Drosophila)" from GO:0001744
* Added synonym "optic lobe and Bolwig's organ precursor formation" to GO:0001744
* Changed synonym scope of GO:0001744 from "Related" to "Exact"
* Added synonym "optic lobe placode formation (sensu Drosophila)" to GO:0001744
* Changed synonym scope of GO:0001744 from "Related" to "Exact"
* Added synonym "optic placode formation (sensu Endopterygota)" to GO:0001744
* Changed synonym scope of GO:0001744 from "Related" to "Exact"
* Changed name of GO:0001748 from "optic placode development (sensu Endopterygota)" to "optic lobe placode development"
* Changed definition of GO:0001748 from "The process whose specific outcome is the progression of the optic placode over time, from its formation to the mature structure. During embryonic stage 12 the placode starts to invaginate, forming a pouch. Cells that will form Bolwig's organ segregate from the ventral lip of this pouch, remaining in the head epidermis. The remainder of the invagination loses contact with the outer surface and becomes the optic lobe. As in, but not restricted to, the Holometabola (Endopterygota, ncbi_taxonomy_id:33392)." to "The process whose specific outcome is the progression of the optic placode over time, from its formation to the mature structure. During embryonic stage 12 the placode starts to invaginate, forming a pouch. Cells that will form Bolwig's organ segregate from the ventral lip of this pouch, remaining in the head epidermis. The remainder of the invagination loses contact with the outer surface and becomes the optic lobe."
* Added synonym "optic lobe and Bolwig's organ precursor development" to GO:0001748
* Changed synonym scope of GO:0001748 from "Related" to "Exact"
* Added synonym "optic placode development (sensu Endopterygota)" to GO:0001748
* Changed synonym scope of GO:0001748 from "Related" to "Exact"
* Changed comment from "This term was made obsolete because it represents a biological process and not a molecular function. To update annotations, consider the function ontology term 'synaptic vesicle targeting ; GO:GO:0016080'." to "This term was made obsolete because it represents a biological process and not a molecular function."
* Changed comment from "This term was made obsolete because it is a type of cell rather than a cellular component. To update annotations, consider the fungal anatomy ontology term 'ascus ; FAO:0000014'." to "This term was made obsolete because it is a type of cell rather than a cellular component. To update annotations, consider external ontology term 'ascus ; FAO:0000014'."
* Changed comment from "This term was made obsolete because it represents a type of whole cell rather than a cellular component. To update annotations, consider the fungal anatomy ontology term 'shmoo ; FAO:0001023'." to "This term was made obsolete because it represents a type of whole cell rather than a cellular component. To update annotations, consider external ontology term 'shmoo ; FAO:0001023'."
* Deleted GO:0007293 --part_of--> GO:0009993
* Copied GO:0007293 to GO:0048477 with type part_of
* Deleted GO:0007295 --part_of--> GO:0009993
* Copied GO:0007295 to GO:0048477 with type part_of
* Changed name of GO:0007297 from "follicle cell migration (sensu Insecta)" to "ovarian follicle cell migration"
* Changed definition of GO:0007297 from "The directed movement of follicle cells that takes place during oogenesis. During egg chamber formation, follicle cells migrate to envelop the germ-line cysts and move in between cysts. At stage 10B, follicle cells migrate centripetally between the nurse cells and the oocyte, enclosing the anterior of the egg. As in, but not restricted to, the true insects (Insecta, ncbi_taxonomy_id:50557)." to "The directed movement of follicle cells that takes place during oogenesis. During egg chamber formation, follicle cells migrate to envelop the germ-line cysts and move in between cysts. At stage 10B, follicle cells migrate centripetally between the nurse cells and the oocyte, enclosing the anterior of the egg."
* Added definition dbxref GOC:mtg_sensu to GO:0007297
* Added synonym "follicle cell migration (sensu Insecta)" to GO:0007297
* Changed synonym scope of GO:0007297 from "Related" to "Exact"
* Changed name of GO:0007298 from "border follicle cell migration (sensu Insecta)" to "border follicle cell migration"
* Changed definition of GO:0007298 from "The directed movement of the border cells through the nurse cells to reach the oocyte. As in, but not restricted to, the true insects (Insecta, ncbi_taxonomy_id:50557)." to "The directed movement of the border cells through the nurse cells to reach the oocyte."
* Added definition dbxref GOC:mtg_sensu to GO:0007298
* Added synonym "border follicle cell migration (sensu Insecta)" to GO:0007298
* Changed synonym scope of GO:0007298 from "Related" to "Exact"
* Changed name of GO:0007299 from "follicle cell adhesion (sensu Insecta)" to "ovarian follicle cell adhesion"
* Changed definition of GO:0007299 from "The attachment of a somatic follicle cell to another somatic follicle cell or to its substratum, the germline cells. As in, but not restricted to, the true insects (Insecta, ncbi_taxonomy_id:50557)." to "The attachment of a somatic follicle cell to another somatic follicle cell or to its substratum, the germline cells."
* Added definition dbxref GOC:mtg_sensu to GO:0007299
* Added synonym "follicle cell adhesion (sensu Insecta)" to GO:0007299
* Changed synonym scope of GO:0007299 from "Related" to "Exact"
* Deleted GO:0007300 --part_of--> GO:0009993
* Copied GO:0007300 to GO:0048477 with type part_of
* Deleted GO:0007308 --part_of--> GO:0009993
* Copied GO:0007308 to GO:0048477 with type part_of
* Changed definition of GO:0007403 from "MERGED DEFINITION:
TARGET DEFINITION: Process by which a cell becomes capable of differentiating autonomously into a glial cell regardless of its environment; upon determination, the cell fate cannot be reversed.
--------------------
SOURCE DEFINITION: Process by which a cell becomes capable of differentiating autonomously into a glial cell regardless of its environment; upon determination, the cell fate cannot be reversed. As in, but not restricted to, the roundworms (Nematoda, ncbi_taxonomy_id:6231) and the taxon Protostomia (Protostomia, ncbi_taxonomy_id:33317)." to "Process by which a cell becomes capable of differentiating autonomously into a glial cell regardless of its environment; upon determination, the cell fate cannot be reversed."
* Added definition dbxref GOC:mtg_sensu to GO:0007403
* Changed name of GO:0008069 from "dorsal/ventral axis determination, follicular epithelium (sensu Insecta)" to "dorsal/ventral axis determination, ovarian follicular epithelium"
* Changed definition of GO:0008069 from "Polarization of the follicle cells along the dorsal/ventral axis. As in, but not restricted to, the true insects (Insecta, ncbi_taxonomy_id:50557)." to "Polarization of the ovarian follicle cells along the dorsal/ventral axis."
* Added definition dbxref GOC:mtg_sensu to GO:0008069
* Added synonym "dorsal/ventral axis determination, follicular epithelium (sensu Insecta)" to GO:0008069
* Changed synonym scope of GO:0008069 from "Related" to "Exact"
* Changed name of GO:0008070 from "maternal determination of dorsal/ventral axis, follicular epithelium, germ-line encoded" to "maternal determination of dorsal/ventral axis, ovarian follicular epithelium, germ-line encoded"
* Changed definition of GO:0008070 from "Polarization of the follicle cells along the dorsal-ventral axis by a gene product encoded by cells of the germ line." to "Polarization of the ovarian follicle cells along the dorsal-ventral axis by a gene product encoded by cells of the germ line."
* Added definition dbxref GOC:mtg_sensu to GO:0008070
* Changed name of GO:0008071 from "maternal determination of dorsal/ventral axis, follicular epithelium, soma encoded (sensu Insecta)" to "maternal determination of dorsal/ventral axis, ovarian follicular epithelium, soma encoded"
* Changed definition of GO:0008071 from "Polarization of the follicle cells along the dorsal-ventral axis by a gene product encoded by somatic cells. As in, but not restricted to, the true insects (Insecta, ncbi_taxonomy_id:50557)." to "Polarization of the ovarian follicle cells along the dorsal-ventral axis by a gene product encoded by somatic cells."
* Added definition dbxref GOC:mtg_sensu to GO:0008071
* Added synonym "maternal determination of dorsal/ventral axis, follicular epithelium, soma encoded (sensu Insecta)" to GO:0008071
* Changed synonym scope of GO:0008071 from "Related" to "Exact"
* Deleted GO:0009993 --OBO_REL:is_a--> GO:0048477
* Deleted GO:0030707 --part_of--> GO:0009993
* Deleted GO:0007300 --part_of--> GO:0009993
* Deleted GO:0048132 --part_of--> GO:0009993
* Deleted GO:0030717 --part_of--> GO:0009993
* Deleted GO:0007293 --part_of--> GO:0009993
* Deleted GO:0007295 --part_of--> GO:0009993
* Deleted GO:0007308 --part_of--> GO:0009993
* Destroyed object GO:0009993
* Changed comment from "This term was made obsolete because it describes a gene product rather than a function. To update annotations, consider molecular_function term 'hydrogen ion channel activity ; GO:0015252'." to "This term was made obsolete because it describes a gene product rather than a function."
* Changed comment from "This term was made obsolete because it wrongly combines voltage-gated anion channel activity and porin activity. To update annotations, consider molecular_function term 'voltage-gated anion channel activity ; GO:0022844' or its children." to "This term was made obsolete because it wrongly combines voltage-gated anion channel activity and porin activity."
* Changed comment from "This term was made obsolete because it arbitrarily groups three substrates. To update annotations, consider biological_process terms 'arbutin transport ; GO:0042949', 'cellobiose transport ; GO:0019533', and 'salicin transport ; GO:0042948'." to "This term was made obsolete because it arbitrarily groups three substrates."
* Changed comment from "This term was made obsolete because it represents a biological process. To update annotations, use the molecular function term 'regulation of sodium:hydrogen antiporter activity ; GO:0022899'." to "This term was made obsolete because it represents a biological process. To update annotations, use external ontology term 'regulation of sodium:hydrogen antiporter activity ; GO:0022899'."
* Changed name of GO:0030707 from "ovarian follicle cell development (sensu Insecta)" to "ovarian follicle cell development"
* Changed definition of GO:0030707 from "The process that occurs during oogenesis involving the ovarian follicle cells, somatic cells which surround the germ cells of an ovary. As in, but not restricted to, the true insects (Insecta, ncbi_taxonomy_id:50557)." to "The process that occurs during oogenesis involving the ovarian follicle cells, somatic cells which surround the germ cells of an ovary."
* Added definition dbxref GOC:mtg_sensu to GO:0030707
* Added synonym "ovarian follicle cell development (sensu Insecta)" to GO:0030707
* Changed synonym scope of GO:0030707 from "Related" to "Exact"
* Deleted GO:0030707 --part_of--> GO:0009993
* Copied GO:0030707 to GO:0048477 with type part_of
* Changed name of GO:0030713 from "stalk formation (sensu Insecta)" to "ovarian follicle cell stalk formation"
* Changed definition of GO:0030713 from "Differentiation of follicle cells to create the interfollicular stalks that connect the egg chambers of progressive developmental stages. As in, but not restricted to, the true insects (Insecta, ncbi_taxonomy_id:50557)." to "Development of ovarian follicle cells to create the interfollicular stalks that connect the egg chambers of progressive developmental stages."
* Added definition dbxref GOC:mtg_sensu to GO:0030713
* Added synonym "stalk formation (sensu Insecta)" to GO:0030713
* Changed synonym scope of GO:0030713 from "Related" to "Exact"
* Deleted GO:0030713 --OBO_REL:is_a--> GO:0030154
* Copied GO:0030713 to GO:0000904 with type OBO_REL:is_a
* Deleted GO:0030717 --part_of--> GO:0009993
* Copied GO:0030717 to GO:0048477 with type part_of
* Changed name of GO:0033565 from "Vps27p-Hse1p complex" to "ESCRT-0 complex"
* Added synonym "Hrs/STAM complex" to GO:0033565
* Changed synonym scope of GO:0033565 from "Related" to "Exact"
* Added synonym "Vps27p-Hse1p complex" to GO:0033565
* Changed synonym scope of GO:0033565 from "Related" to "Exact"
* Deleted GO:0048132 --part_of--> GO:0009993
* Copied GO:0048132 to GO:0048477 with type part_of
* added secondary id GO:0009993 to GO:0048477
* Added synonym "oogenesis (sensu Insecta)" to GO:0048477
* Changed synonym scope of GO:0048477 from "Related" to "Exact"