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ONTOLOGY REPORT - ANNOTATIONS


Term:autophagic cell death
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Accession:GO:0048102 term browser browse the term
Definition:A form of programmed cell death that is accompanied by the formation of autophagosomes. Autophagic cell death is characterized by lack of chromatin condensation and massive vacuolization of the cytoplasm, with little or no uptake by phagocytic cells.
Comment:The precise nature of autophagic cell death is still being debated, and the link between autophagy and cell death unclear. As autophagy is often induced under conditions of stress that could also lead to cell death, there has been a propagation of the idea that autophagy can act as a cell death mechanism; but others suggest that autophagy may simply be an attempt of dying cells to adapt to lethal stress rather than a mechanism to execute a cell death program. Further studies are required to resolve this controversy (see e.g. PMID:22082964, PMID:22052193, PMID:25236395). In the meantime, curators should carefully examine the experimental evidence presented in papers concerning autophagic cell death, and annotate accordingly. Recently, an instance of autophagic cell death, termed autosis, was discovered that relies on the plasma membrane Na+/K+-ATPase. Autosis was observed in vivo in the brain of rats subjected to an ischemic insult. It's still unclear if all cases of autophagic cell death require the Na+/K+-ATPase or not.
Synonyms:exact_synonym: programmed cell death by autophagy;   programmed cell death by macroautophagy
 broad_synonym: autophagic death
 related_synonym: autosis;   type II programmed cell death
 only_in_taxon: NCBITaxon:2759 ! Eukaryota


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autophagic cell death term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Acp2 acid phosphatase 2, lysosomal IDA RGD PMID:18690537 RGD:4892631 NCBI chr 3:80,020,346...80,030,365
Ensembl chr 3:80,021,440...80,030,363
JBrowse link
G Bnip3 BCL2 interacting protein 3 IMP RGD PMID:19539716 RGD:5128797 NCBI chr 1:211,248,098...211,265,282
Ensembl chr 1:211,248,098...211,265,282
JBrowse link
G Cdkn1b cyclin-dependent kinase inhibitor 1B ISO (PMID:12698196) RGD PMID:12698196 NCBI chr 4:168,689,043...168,694,159
Ensembl chr 4:168,689,163...168,693,964
JBrowse link
G Ctsl cathepsin L IEP RGD PMID:16176344 RGD:2315590 NCBI chr17:1,873,105...1,879,266
Ensembl chr17:1,872,848...1,879,279
JBrowse link
G Lamp1 lysosomal-associated membrane protein 1 IDA RGD PMID:18690537 RGD:4892631 NCBI chr16:81,689,576...81,714,341
Ensembl chr16:81,689,335...81,714,419
JBrowse link
G Sh3glb1 SH3 domain -containing GRB2-like endophilin B1 IEA
ISO
GO_REF:0000107
(MGI:MGI:3770552|PMID:17891140)
(PMID:17891140)
Ensembl
RGD
PMID:17891140 GO_REF:0000107, MGI:MGI:3770552 NCBI chr 2:250,709,812...250,744,216
Ensembl chr 2:250,709,439...250,744,196
JBrowse link
G Tp53inp1 tumor protein p53 inducible nuclear protein 1 IEA
ISS
ISO
GO_REF:0000107
GO_REF:0000024
(PMID:22421968)
Ensembl
UniProt
RGD
PMID:22421968 GO_REF:0000024, GO_REF:0000107 NCBI chr 5:24,402,895...24,419,651
Ensembl chr 5:24,410,863...24,416,888
JBrowse link
induction by virus of host autophagy term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Eif2ak4 eukaryotic translation initiation factor 2 alpha kinase 4 ISO (MGI:MGI:5544501|PMID:24310610) RGD PMID:24310610 MGI:MGI:5544501 NCBI chr 3:110,159,624...110,245,382
Ensembl chr 3:110,159,708...110,249,217
JBrowse link
G Phb2 prohibitin 2 ISO (PMID:32276428) RGD PMID:32276428 NCBI chr 4:157,230,769...157,235,375
Ensembl chr 4:157,230,769...157,235,367
JBrowse link
negative regulation of autophagic cell death term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atp6v0c ATPase H+ transporting V0 subunit C IMP RGD PMID:17845832 RGD:14700553 NCBI chr10:13,537,031...13,543,407
Ensembl chr10:13,537,033...13,542,077
JBrowse link
G Bmf Bcl2 modifying factor ISO (MGI:MGI:5490676|PMID:23629966) RGD PMID:23629966 MGI:MGI:5490676 NCBI chr 3:110,303,515...110,324,125
Ensembl chr 3:110,306,067...110,324,084
JBrowse link
G Laptm5 lysosomal protein transmembrane 5 ISO (PMID:19787053) RGD PMID:19787053 NCBI chr 5:149,015,793...149,069,719
Ensembl chr 5:149,047,681...149,069,719
JBrowse link
G Trem2 triggering receptor expressed on myeloid cells 2 ISO UniProtKB:P05067|UniProtKB:P49768 (MGI:MGI:5906931|PMID:28802038) RGD PMID:28802038 MGI:MGI:5906931 NCBI chr 9:14,611,541...14,618,076
Ensembl chr 9:14,611,561...14,618,013
JBrowse link
suppression by virus of host autophagy term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atg7 autophagy related 7 ISO (PMID:23290079) RGD PMID:23290079 NCBI chr 4:146,570,113...146,777,093
Ensembl chr 4:146,598,413...146,777,124
JBrowse link

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  biological_process 20028
    cellular process 18800
      cell death 2137
        programmed cell death 1948
          autophagic cell death 14
            negative regulation of autophagic cell death 4
            positive regulation of autophagic cell death 0
            regulation of autophagic cell death + 7
            salivary gland cell autophagic cell death + 0
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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.