pigment cell differentiation

[gocentral]

I would like to propose an expansion of terms in the process tree to accommodate differentiation of more types of pigment cells. Here is a proposed structure, for which I will be happy to provide defs etc. once any churning of graph structures stops. The proposed structure does not include multiple parentage which will occur in several cases.

cell differentiation (GO:0030154) --%pigment cell differentiation (GO:NEW) ----%melanocyte differentiation (GO:0030318) ------%early stripe melanocyte (ESM) diff. (GO:NEW) --------<reg. of. ESM differentiation(GO:NEW) ----------%pos. reg. of ESM diff. (GO:NEW) ----------%neg. reg. of ESM diff (GO:NEW) ------%late stripe melanocyte (LSM) diff. (GO:NEW) --------<reg. of. LSM differentiation(GO:NEW) ----------%pos. reg. of LSM diff. (GO:NEW) ----------%neg. reg. of LSM diff (GO:NEW) ----%iridophore differentiation (GO:NEW) --------<reg. of. iridophore differentiation(GO:NEW) ----------%pos. reg. of iridophore diff. (GO:NEW) ----------%neg. reg. of iridophore diff (GO:NEW) ----%xanthophore differentiation (GO:NEW) --------<reg. of. xanthophore differentiation(GO:NEW) ----------%pos. reg. of xanthophore diff. (GO:NEW) ----------%neg. reg. of xanthophore diff (GO:NEW)

In the case of much opposition to implementing a structure with this many new terms, I would reluctantly settle for a single new term 'pigment cell differentiation' (GO:NEW) as a parent of 'melanocyte differentiation (GO:0030318) perhaps with a single set of regulation terms to go along with it.

-Doug

Reported by: doughowe

Original Ticket: "geneontology/ontology-requests/1488":https://sourceforge.net/p/geneontology/ontology-requests/1488

[gocentral]

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Hi Doug - any chance of defs for some of these cell types?

Original comment by: girlwithglasses

[gocentral]

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Here are Definitions for the various new terms I'm interested in.

TERM: Pigment cell differentiation DEFINITION: The process whereby a relatively unspecialized cell acquires the specialized features of a pigmented cell such as a melanocyte. DEFXREF: zfin:dh

With respect to parentage, it should be analogous to the parentage for the similar melanocyte differentiation terms.

ie.. all the "regulation of...." terms should be isa children of GO:0045595 "regulation of cell differentiation" in addition to their partof parent shown in the graph above.

all the "positive regulation of...." terms should be isa children of GO:0045597 "positive regulation of cell differentiation" in addition to their isa parents shown in the graph above.

all the "negative regulation of...." terms should be isa children of GO:0045596 "negative regulation of cell differentiation" in addition to their isa parents shown inthe graph above.

-Doug

TERM: Early stripe melanocyte differentiation DEFINITION: The process whereby a relatively unspecialized cell acquires the specialized features of an early stripe melanocyte (ESM). In zebrafish, ESMs develop during the first phase (2-3 weeks of development) of the larva to adult transition (2-4 weeks of development). DEFXREF: PMID 11858836

TERM: Late stripe melanocyte differentiation DEFINITION: The process whereby a relatively unspecialized cell acquires the specialized features of a late stripe melanocyte (LSM). In zebrafish, LSMs develop during the second phase (3-4 weeks of development) of the larva-to-adult transition (2-4 weeks of development). DEFXREF: PMID 11858836

TERM: Iridophore differentiation DEFINITION: The process whereby a relatively unspecialized cell acquires the specialized features of an iridophore. Iridophores are iridescent or reflective pigment cells derived from the nerual crest containing guanidine-based reflective platelets responsible for their silver or gold appearance. DEFXREF: PMID 11858836

TERM: Xanthophore differentiation DEFINITION: The process whereby a relatively unspecialized cell acquires the specialized features of a xanthophore. Xanthophores are pigment cells derived from the neural crest containing pteridine and/or carotenoid pigments making them yellow or orange in appearance. DEFXREF: PMID 11858836

Original comment by: doughowe

[gocentral]

Logged In: YES user_id=473796

Added the terms suggested: GO:0050931 pigment cell differentiation GO:0050932 regulation of pigment cell differentiation GO:0050933 early stripe melanocyte differentiation GO:0050934 late stripe melanocyte differentiation GO:0050935 iridophore differentiation GO:0050936 xanthophore differentiation GO:0050937 regulation of iridophore differentiation GO:0050938 regulation of xanthophore differentiation GO:0050939 regulation of early stripe melanocyte differentiation GO:0050940 regulation of late stripe melanocyte differentiation GO:0050941 negative regulation of pigment cell differentiation GO:0050942 positive regulation of pigment cell differentation GO:0050943 negative regulation of iridophore differentiation GO:0050944 negative regulation of xanthophore differentiation GO:0050945 positive regulation of iridophore differentiation GO:0050946 positive regulation of xanthophore differentiation GO:0050947 negative regulation of early stripe melanocyte differentiation GO:0050948 positive regulation of early stripe melanocyte differentiation GO:0050949 negative regulation of late stripe melanocyte differentiation GO:0050950 positive regulation of late stripe melanocyte differentiation

Original comment by: girlwithglasses

[gocentral]

• milestone: --> TermGenie
• assigned_to: nobody --> girlwithglasses
• status: open --> closed-accepted

Original comment by: girlwithglasses