| Year | Citation (first author/journal) | URL/DOI | Evidence type | Main contribution for Ire1 function | Quantitative/statistical data highlighted (if any) |
|---|---|---|---|---|---|
| 1997 | Sidrauski & Walter, *Cell* | https://doi.org/10.1016/S0092-8674(00)80369-4 | Primary | Foundational demonstration that *S. cerevisiae* Ire1p is an ER/inner nuclear membrane transmembrane kinase and site-specific endoribonuclease; cleaves *HAC1* mRNA at both splice junctions; together with tRNA ligase reconstitutes nonconventional splicing in vitro; establishes core Ire1→Hac1 UPR pathway and substrate specificity for *HAC1* over control RNAs (pqac-00000008, pqac-00000010, pqac-00000012, pqac-00000015) | Cell paper cited as having 1201 citations; splice-site point mutations selectively block cleavage; purified Ire1 + tRNA ligase sufficient for splicing; ATP/ADP/AMP-PNP support cleavage whereas GTP does not (pqac-00000008, pqac-00000010, pqac-00000015) |
| 2023 | Ishiwata-Kimata & Kimata, *Journal of Fungi* | https://doi.org/10.3390/jof9100989 | Review | Best current yeast-focused synthesis: confirms Ire1 as ER type I transmembrane stress sensor with cytosolic kinase/RNase; activation by unfolded proteins and lipid bilayer stress; Kar2/BiP repression and release; oligomerization/puncta; predominant substrate is *HAC1u* in *S. cerevisiae*; attenuation via dephosphorylation/BiP re-binding; discusses industrial exploitation of constitutive UPR/Hac1 for secretion and ER expansion (pqac-00000000, pqac-00000004, pqac-00000016, pqac-00000017, pqac-00000020, pqac-00000022, pqac-00000024, pqac-00000031) | Notes milder RNase output under lipid bilayer stress with dimeric vs oligomeric Ire1; reports constitutive/enforced UPR can enlarge ER and improve secretion, but may retard growth in *S. cerevisiae* (pqac-00000017, pqac-00000024, pqac-00000031) |
| 2024 | Ernst et al., *Cold Spring Harbor Perspectives in Biology* | https://doi.org/10.1101/cshperspect.a041400 | Review | Authoritative 2024 review on ER membrane homeostasis/UPR; frames ScIre1 as integrating proteotoxic and lipid bilayer stress; emphasizes oligomeric-state control, signaling clusters/filaments, TMD-based membrane sensing, and absence of robust RIDD in *S. cerevisiae* compared with other systems (pqac-00000018, pqac-00000021) | No yeast-specific numeric dataset extracted in evidence, but highlights structurally distinct activation modes and broad transcriptional regulation of hundreds of UPR targets through spliced *HAC1* (pqac-00000021) |
| 2023 | Bartoszewska et al., *Journal of Cell Communication and Signaling* | https://doi.org/10.1007/s12079-023-00784-5 | Review | Comparative review useful for distinguishing yeast Ire1 from mammalian IRE1α: confirms yeast Ire1 as original UPR sensor that cleaves *HAC1* at two sites to produce active Hac1; also summarizes conserved dual kinase/RNase architecture across eukaryotes (pqac-00000002) | Article noted as having 23 citations; includes mammalian autophosphorylation residues S724/S726/S729 for comparison, underscoring species differences in downstream substrates (*HAC1* vs *XBP1*) (pqac-00000002) |
| 2023 | Uppala et al., *bioRxiv* | https://doi.org/10.1101/2023.11.19.567283 | Preprint / primary | Provides recent mechanistic evidence that MAPK Slt2 promotes adaptation to ER stress by enhancing both *HAC1* mRNA splicing and translation, adding a regulatory layer upstream/parallel to canonical Ire1–Hac1 signaling in budding yeast (pqac-00000033, pqac-00000034) | DTT 5 mM time course (1–8 h); Hac1 detectable by 1 h then reduced at 6–8 h; Slt2 phosphorylation ~2.5-fold at 2 h in WT, ~4-fold for Flag-Slt2 at 2 h, and ~19-fold at ≥4 h; truncation mapping identified residues 1–400/1–440 as functional but 1–355 nonfunctional (pqac-00000033) |
| 2024 | Jadhav et al., *Applied Microbiology and Biotechnology* | https://doi.org/10.1007/s00253-023-12985-4 | Review | Application-focused review showing how Ire1/Hac1-like UPR manipulation is implemented in fungal biotechnology to improve secretory capacity; useful for real-world relevance of yeast UPR knowledge to enzyme/recombinant protein production (pqac-00000027) | Reports activated HacA/Hac1 strategies increasing *T. versicolor* laccase up to 7-fold and bovine preprochymosin up to 2.8-fold; disruption of *aoatg15* in *A. oryzae* gave ~3-fold higher bovine chymosin secretion (pqac-00000027) |


*Table: This table summarizes core literature for functional annotation of budding yeast Ire1/ERN1/YHR079C, spanning foundational mechanism, current reviews, recent regulatory studies, and applied biotechnology relevance. It is useful for quickly linking each source to specific evidence on activation, enzymatic function, substrate specificity, pathway role, localization, and practical implementation.*