sta-1 (Q9NAD6) curation notes

2026-10-04 review session

Sources read: UniProt Q9NAD6, sta-1-deep-research-openscientist.md (retrieval only;
claims checked against primary papers below), cached publications.

• PMID:16401427 (Wang & Levy 2006, Curr Biol) - abstract only in cache.
• PMID:16873887 (Wang & Levy 2006, FASEB J) - abstract only in cache.
• PMID:28874466 (Tanguy et al. 2017, mBio) - full text cached.
• PMID:42427644 (Batachari et al. 2026, bioRxiv preprint) - full text cached; not peer reviewed.
• PMID:14704431 (Li et al. 2004 WI5 interactome) - source of the protein binding IPI.

Identity and domains

• STAT family; coiled-coil, DNA-binding, linker, SH2; lacks N-terminal oligomerization domain
  PMID:16873887.
• Recognises a conserved STAT cis element PMID:16873887.
• Paralog STA-2 lacks coiled-coil and tyrosine motif PMID:28874466.
  STA-2 epidermal AMP papers cited by the deep research are about the paralog and not used here.

No JAK in C. elegans

• PMID:28874466
• PMID:28874466
• So GO:0007259 (JAK-STAT) IBA from PTN000927860 is lineage-inappropriate -> REMOVE, as for sta-2
  (projects/IBA_REVIEW.md section 14; projects/TAXON_PATHWAY_VARIANCE.md case study 1).

Repressor of antiviral program (intestine)

• PMID:28874466
• ChIP-seq PMID:28874466.
• Some activation possible PMID:28874466.
• Phenotype PMID:28874466.
• SID-3 genetically upstream PMID:28874466.
• Preprint: cell-intrinsic, nuclear, relocalises PMID:42427644;
  DRH-1 PMID:42427644;
  residues PMID:42427644.

Dauer repression (neurons)

• PMID:16401427
• PMID:16401427
• PMID:16401427
• PMID:16401427
• Hence MODIFY GO:0040024 rows -> GO:0061067 negative regulation of dauer larval development.

Decisions summary

• NEW GO:0001227 (repressor activity, Pol II) and GO:0000122 from PMID:28874466: STA-1 is the
  promoter-bound repressor itself (participation test passes; MF, not a comparator argument).
  This resolves the FUNCTION_UNREVIEWED warning for STA-1 in
  modules/c_elegans_jak_independent_stat_signaling.yaml.
• GO:0006952 defense response IBA -> MODIFY to GO:0050687 (sign inversion vs. activating seeds).
• GO:0042127 proliferation IBA -> MARK_AS_OVER_ANNOTATED (no evidence; not JAK-presupposing).
• GO:0045944 IDA (PMID:16873887, abstract only) kept as non-core; not removed.
• protein binding (Y2H) -> REMOVE per policy.
• GO ids checked via QuickGO: GO:0001227, GO:0000122, GO:0050687, GO:0061067 (all current).
• For the PTHR11801 family review: removed GO:0007259 IBA derives from PAINT node PTN000927860
  (paint.tsv row GO:0007259 IBD, seeds vertebrate STATs + fly Stat92E). The nematode branch needs
  an IRD / member exception, as for sta-2.

Literature review integration (2026-10-04)

Added two evolutionary reviews (both full text cached):

• Wang & Levy 2012 (PMID:24058748): STA-1 domain content and STAT-motif binding. STA-1 has SH2, DNA-binding
  and coiled-coil domains PMID:24058748
  and binds a STAT consensus motif in EMSA PMID:24058748.
  Added as support for GO:0000978 (IBA), GO:0003677 (IEA) and GO:0043565 (IDA). The nematode STAT lacks the
  N-terminal domain, probably the ancestral state PMID:24058748.
• Liongue & Ward 2013 (PMID:24058787): the canonical JAK-STAT pathway was assembled before protostomes
  diverged PMID:24058787,
  so nematode JAK absence is a lineage-specific loss. Added to the GO:0007259 REMOVE: the PTN000927860 IBD
  placement is sound for the seeds, and the fix is an IRD on the nematode branch. The review does not itself
  discuss nematode JAK loss; that comes from PMID:28874466.
• No actions changed.

Cross-gene briefing for GO editors and PAINT curators: https://claude.ai/artifact/4MLfbbbWWnLchDvspwdPuM