KEGG   PATHWAY: tben04140
Entry
tben04140                   Pathway                                
Name
Autophagy - animal - Trematomus bernacchii (emerald rockcod)
Description
Autophagy (or macroautophagy) is a cellular catabolic pathway involving in protein degradation, organelle turnover, and non-selective breakdown of cytoplasmic components, which is evolutionarily conserved among eukaryotes and exquisitely regulated. This progress initiates with production of the autophagosome, a double-membrane intracellular structure of reticular origin that engulfs cytoplasmic contents and ultimately fuses with lysosomes for cargo degradation. Autophagy is regulated in response to extra- or intracellular stress and signals such as starvation, growth factor deprivation and ER stress. Constitutive level of autophagy plays an important role in cellular homeostasis and maintains quality control of essential cellular components.
Class
Cellular Processes; Transport and catabolism
Pathway map
tben04140  Autophagy - animal
tben04140

Other DBs
GO: 0006914
Organism
Trematomus bernacchii (emerald rockcod) [GN:tben]
Gene
117468503  rragca; ras-related GTP binding Ca [KO:K16186]
117468505  mtmr4; LOW QUALITY PROTEIN: myotubularin-related protein 4 [KO:K18082] [EC:3.1.3.48 3.1.3.64 3.1.3.95]
117468664  [KO:K01110] [EC:3.1.3.16 3.1.3.48 3.1.3.67]
117468667  [KO:K08770]
117468702  ulk2; serine/threonine-protein kinase ULK2 [KO:K08269] [EC:2.7.11.1]
117468862  hmgb1b; high mobility group protein B1b [KO:K10802]
117469129  vps16; vacuolar protein sorting-associated protein 16 homolog [KO:K20180]
117469139  atg16l1; autophagy-related protein 16-1 [KO:K17890]
117469240  rras; ras-related protein R-Ras [KO:K07830]
117469273  [KO:K21248]
117469283  wipi1; WD repeat domain phosphoinositide-interacting protein 1 isoform X1 [KO:K17908]
117469313  nbr1b; next to BRCA1 gene 1 protein isoform X1 [KO:K17987]
117469588  [KO:K04526]
117469598  akt1; RAC-alpha serine/threonine-protein kinase [KO:K04456] [EC:2.7.11.1]
117469677  eif2ak3; LOW QUALITY PROTEIN: eukaryotic translation initiation factor 2-alpha kinase 3 [KO:K08860] [EC:2.7.11.1]
117470004  pik3cb; phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit beta isoform [KO:K00922] [EC:2.7.1.153]
117470036  [KO:K04688] [EC:2.7.11.1]
117470102  vmp1; vacuole membrane protein 1 [KO:K21248]
117470147  akt2; RAC-beta serine/threonine-protein kinase [KO:K04456] [EC:2.7.11.1]
117470250  rraga; ras-related GTP-binding protein A [KO:K16185]
117470408  si:ch211-11n16.2; zinc finger FYVE domain-containing protein 1 [KO:K17603]
117470840  rab33ba; RAB33B, member RAS oncogene family a [KO:K07920]
117471040  hif1al; LOW QUALITY PROTEIN: hypoxia inducible factor 1 subunit alpha, like [KO:K08268]
117471353  [KO:K08341]
117471404  ctsba; cathepsin B [KO:K01363] [EC:3.4.22.1]
117471431  lamp1a; lysosome-associated membrane glycoprotein 1a isoform X1 [KO:K06528]
117471499  ctsd; cathepsin D [KO:K01379] [EC:3.4.23.5]
117471504  rras2; ras-related protein R-Ras2 [KO:K07830]
117471647  traf6; TNF receptor-associated factor 6 [KO:K03175] [EC:2.3.2.27]
117472140  atg101; autophagy-related protein 101 [KO:K19730]
117472164  vps11; vacuolar protein sorting-associated protein 11 homolog [KO:K20179]
117472167  uvrag; UV radiation resistance-associated gene protein isoform X1 [KO:K21249]
117472247  dapk2a; death-associated protein kinase 2a isoform X1 [KO:K08803] [EC:2.7.11.1]
117472424  snap29; synaptosomal-associated protein 29 [KO:K08509]
117472493  wdfy3; WD repeat and FYVE domain-containing protein 3 isoform X1 [KO:K22262]
117472631  mapk1; mitogen-activated protein kinase 1 [KO:K04371] [EC:2.7.11.24]
117472659  ykt6; synaptobrevin homolog YKT6 [KO:K08516]
117472990  [KO:K02649]
117472996  [KO:K04382] [EC:3.1.3.16]
117473051  dapk1; death-associated protein kinase 1 [KO:K08803] [EC:2.7.11.1]
117473052  ctsla; cathepsin La [KO:K01365] [EC:3.4.22.15]
117473090  vps33a; vacuolar protein sorting-associated protein 33A [KO:K20182]
117473230  ulk1a; serine/threonine-protein kinase ULK1a [KO:K21357] [EC:2.7.11.1]
117473509  epas1a; LOW QUALITY PROTEIN: endothelial PAS domain-containing protein 1 [KO:K08268]
117473523  calcoco2; calcium-binding and coiled-coil domain-containing protein 2 isoform X1 [KO:K21348]
117473561  nbr1a; NBR1 autophagy cargo receptor a isoform X1 [KO:K17987]
117473571  atg10; ubiquitin-like-conjugating enzyme ATG10 [KO:K17888]
117473644  [KO:K17908]
117473660  becn1; beclin-1 [KO:K08334]
117473661  pdpk1b; 3-phosphoinositide-dependent protein kinase 1 [KO:K06276] [EC:2.7.11.1]
117473707  plekhm1; LOW QUALITY PROTEIN: pleckstrin homology domain-containing family M member 1 [KO:K23282]
117473875  nrbf2b; nuclear receptor-binding factor 2b isoform X1 [KO:K21246]
117474029  ddit4; DNA damage-inducible transcript 4 protein [KO:K08270]
117474087  mlst8; target of rapamycin complex subunit lst8 [KO:K08266]
117474614  [KO:K04345] [EC:2.7.11.11]
117474659  tsc2; tuberin isoform X1 [KO:K07207]
117475080  [KO:K04382] [EC:3.1.3.16]
117475232  insb; preproinsulin b [KO:K04526]
117475423  itpr1b; inositol 1,4,5-trisphosphate receptor type 1 isoform X1 [KO:K04958]
117475435  si:dkeyp-97e7.9; DEP domain-containing mTOR-interacting protein [KO:K20402]
117475452  [KO:K06068] [EC:2.7.11.13]
117475485  [KO:K07897]
117475611  [KO:K04570]
117475614  si:dkey-13a21.4; ras-related protein Rab-7a [KO:K07897]
117475749  mapk9; mitogen-activated protein kinase 9 [KO:K04440] [EC:2.7.11.24]
117475878  [KO:K00922] [EC:2.7.1.153]
117475995  birc6; LOW QUALITY PROTEIN: baculoviral IAP repeat-containing protein 6 [KO:K10586] [EC:2.3.2.23]
117476011  epg5; ectopic P granules protein 5 homolog [KO:K23883]
117476129  sqstm1; sequestosome-1 [KO:K14381]
117476183  [KO:K17985]
117476206  pik3r4; phosphoinositide 3-kinase regulatory subunit 4 [KO:K08333] [EC:2.7.11.1]
117476260  prkaa1; LOW QUALITY PROTEIN: 5'-AMP-activated protein kinase catalytic subunit alpha-1 [KO:K07198] [EC:2.7.11.31]
117476512  ulk1b; serine/threonine-protein kinase ULK1 [KO:K21357] [EC:2.7.11.1]
117476543  [KO:K07359] [EC:2.7.11.17]
117476544  pik3r1; phosphatidylinositol 3-kinase regulatory subunit alpha isoform X1 [KO:K02649]
117476691  mapk10; mitogen-activated protein kinase 10 isoform X1 [KO:K04440] [EC:2.7.11.24]
117476771  si:ch73-234b20.5; vesicle-associated membrane protein 8 isoform X1 [KO:K08512]
117476779  wdr41; WD repeat-containing protein 41 [KO:K23610]
117477044  [KO:K17906]
117477435  atg3; ubiquitin-like-conjugating enzyme ATG3 [KO:K08343]
117477551  rab42a; ras-related protein Rab-42a isoform X1 [KO:K07925]
117477943  tax1bp1a; tax1-binding protein 1 homolog A isoform X1 [KO:K21347]
117478370  rragcb; ras-related GTP binding Cb [KO:K16186]
117478867  tsc1b; TSC complex subunit 1b [KO:K07206]
117478973  zgc:73226; BCL2/adenovirus E1B 19 kDa protein-interacting protein 3 [KO:K15464]
117479200  si:dkey-240h12.4; death-associated protein kinase 2 [KO:K08803] [EC:2.7.11.1]
117479487  [KO:K21247]
117479493  raf1a; raf-1 proto-oncogene, serine/threonine kinase a isoform X1 [KO:K04366] [EC:2.7.11.1]
117480031  [KO:K08342] [EC:3.4.22.-]
117480194  stx17; syntaxin-17 [KO:K08491]
117480215  zgc:92606; gamma-aminobutyric acid receptor-associated protein-like 1 [KO:K08341]
117480326  hif1aa; hypoxia inducible factor 1 subunit alpha a [KO:K08268]
117480437  deptor; DEP domain-containing mTOR-interacting protein [KO:K20402]
117480461  atg12; ubiquitin-like protein ATG12 [KO:K08336]
117480698  tax1bp1b; LOW QUALITY PROTEIN: tax1-binding protein 1 homolog B [KO:K21347]
117481018  [KO:K26797]
117481078  zgc:101559; LOW QUALITY PROTEIN: ras-related protein Rab-33B [KO:K07920]
117481193  lamp1b; lysosome-associated membrane glycoprotein 1b [KO:K06528]
117481438  irs2b; insulin receptor substrate 2 [KO:K07187]
117481610  smcr8b; guanine nucleotide exchange protein smcr8b [KO:K23611]
117481653  ern2; serine/threonine-protein kinase/endoribonuclease IRE1 [KO:K08852] [EC:2.7.11.1 3.1.26.-]
117481797  map1lc3c; microtubule-associated proteins 1A/1B light chain 3C [KO:K10435]
117481815  [KO:K07874]
117481816  [KO:K07874]
117481856  akt3b; RAC-gamma serine/threonine-protein kinase [KO:K04456] [EC:2.7.11.1]
117481903  atg4da; cysteine protease ATG4D [KO:K08342] [EC:3.4.22.-]
117482120  [KO:K07920]
117482206  rptor; regulatory-associated protein of mTOR isoform X1 [KO:K07204]
117482634  wdr45; WD repeat domain phosphoinositide-interacting protein 4 isoform X1 [KO:K22991]
117482661  rab1ba; zRAB1B, member RAS oncogene family a [KO:K07874]
117482662  eif2ak4; eIF-2-alpha kinase GCN2 [KO:K16196] [EC:2.7.11.1]
117483095  [KO:K04688] [EC:2.7.11.1]
117483161  optn; optineurin isoform X1 [KO:K19946]
117483582  [KO:K07874]
117483644  wdr45b; WD repeat domain phosphoinositide-interacting protein 3 isoform X1 [KO:K22991]
117484106  sh3glb1a; endophilin-B1a [KO:K11248]
117484432  [KO:K08341]
117484803  mtmr3; myotubularin-related protein 3 isoform X1 [KO:K18082] [EC:3.1.3.48 3.1.3.64 3.1.3.95]
117484999  prkcq; protein kinase C theta type [KO:K18052] [EC:2.7.11.13]
117485705  igbp1; immunoglobulin-binding protein 1 [KO:K17606]
117485775  tank; TRAF family member-associated NF-kappa-B activator isoform X1 [KO:K12650]
117485800  si:ch73-116o1.2; ras-related protein M-Ras [KO:K07831]
117485817  [KO:K17603]
117485923  [KO:K04724]
117486395  mapk8b; LOW QUALITY PROTEIN: mitogen-activated protein kinase 8 [KO:K04440] [EC:2.7.11.24]
117486629  rragd; ras-related GTP-binding protein D [KO:K16186]
117486741  [KO:K04427] [EC:2.7.11.25]
117486749  c9orf72; guanine nucleotide exchange C9orf72 homolog [KO:K23609]
117486954  eif2s1b; eukaryotic translation initiation factor 2 subunit 1b [KO:K03237]
117487146  map1lc3a; microtubule-associated proteins 1A/1B light chain 3A [KO:K10435]
117487210  rps27a; ubiquitin-40S ribosomal protein S27a [KO:K02977]
117487749  atg2a; LOW QUALITY PROTEIN: autophagy-related protein 2 homolog A [KO:K17906]
117487811  badb; BCL2 associated agonist of cell death b [KO:K02158]
117488102  si:ch73-335l21.1; LOW QUALITY PROTEIN: insulin receptor substrate 1-B [KO:K16172]
117488113  [KO:K02927]
117488115  gabarapa; GABA(A) receptor-associated protein a [KO:K08341]
117488347  bcl2b; apoptosis regulator Bcl-2 [KO:K02161]
117488414  [KO:K02649]
117488420  gorasp1a; Golgi reassembly-stacking protein 1a [KO:K26797]
117488425  gorasp2; Golgi reassembly-stacking protein 2 [KO:K26797]
117488470  rb1cc1; RB1-inducible coiled-coil protein 1 isoform X1 [KO:K17589]
117488557  atg9b; autophagy-related protein 9B [KO:K17907]
117488653  map2k2b; dual specificity mitogen-activated protein kinase kinase 2b [KO:K04369] [EC:2.7.12.2]
117488687  prkacbb; protein kinase, cAMP-dependent, catalytic, beta b [KO:K04345] [EC:2.7.11.11]
117488737  [KO:K00922] [EC:2.7.1.153]
117488743  stk11; serine/threonine-protein kinase STK11 isoform X1 [KO:K07298] [EC:2.7.11.1]
117488755  pik3r2; phosphatidylinositol 3-kinase regulatory subunit beta [KO:K02649]
117488890  map1lc3cl; microtubule-associated proteins 1A/1B light chain 3C [KO:K10435]
117489255  [KO:K20868]
117489334  rhebl1; ras homolog, mTORC1 binding like 1 [KO:K07208]
117489538  [KO:K04958]
117489547  atg7; ubiquitin-like modifier-activating enzyme ATG7 [KO:K08337]
117489552  prkcda; protein kinase C, delta a [KO:K06068] [EC:2.7.11.13]
117489612  lamp2; lysosome-associated membrane glycoprotein 2 isoform X1 [KO:K06528]
117489841  [KO:K07897]
117490165  [KO:K07925]
117490428  hmgb1a; high mobility group protein B1a [KO:K10802]
117490446  supt20; transcription factor SPT20 homolog isoform X1 [KO:K21245]
117490546  si:ch211-284e13.4; insulin receptor substrate 1-B [KO:K16172]
117490736  ppp2cab; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
117491048  atg4b; cysteine protease ATG4B isoform X1 [KO:K08342] [EC:3.4.22.-]
117491213  dapk2b; death-associated protein kinase 2 isoform X1 [KO:K08803] [EC:2.7.11.1]
117491315  kras; GTPase KRas isoform X1 [KO:K07827]
117491411  map1lc3b; microtubule-associated proteins 1A/1B light chain 3B [KO:K10435]
117491463  map2k1; dual specificity mitogen-activated protein kinase kinase 1 [KO:K04368] [EC:2.7.12.2]
117491619  hrasb; HRas proto-oncogene, GTPase b [KO:K02833]
117491654  igf1ra; insulin-like growth factor 1a receptor [KO:K05087] [EC:2.7.10.1]
117492159  wipi2; WD repeat domain phosphoinositide-interacting protein 2 [KO:K17908]
117492196  mapk3; mitogen-activated protein kinase 3 [KO:K04371] [EC:2.7.11.24]
117492239  [KO:K01363] [EC:3.4.22.1]
117492323  [KO:K08852] [EC:2.7.11.1 3.1.26.-]
117492383  atg9a; autophagy-related protein 9A [KO:K17907]
117492389  napsa; napsin-A [KO:K01379] [EC:3.4.23.5]
117492409  akt1s1; uncharacterized protein akt1s1 [KO:K16184]
117492706  zgc:55558; GTPase HRas [KO:K07827]
117493111  mtmr14; myotubularin-related protein 14 [KO:K18086] [EC:3.1.3.64 3.1.3.95]
117493415  prkacaa; protein kinase, cAMP-dependent, catalytic, alpha, genome duplicate a isoform X1 [KO:K04345] [EC:2.7.11.11]
117493586  smcr8a; guanine nucleotide exchange protein smcr8a [KO:K23611]
117493827  [KO:K11248]
117493830  vps39; vam6/Vps39-like protein isoform X1 [KO:K20183]
117494128  mtor; serine/threonine-protein kinase mTOR [KO:K07203] [EC:2.7.11.1]
117494191  bcl2l1; bcl-2-like protein 1 [KO:K04570]
117494257  pik3cd; phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit delta isoform isoform X1 [KO:K00922] [EC:2.7.1.153]
117494606  [KO:K07925]
117494750  vps41; vacuolar protein sorting-associated protein 41 homolog [KO:K20184]
117494861  atg5; autophagy protein 5 [KO:K08339]
117495108  cts12; cathepsin L1 [KO:K01365] [EC:3.4.22.15]
117495470  [KO:K02649]
117495481  rubcn; run domain Beclin-1-interacting and cysteine-rich domain-containing protein isoform X1 [KO:K19330]
117495553  prkacba; protein kinase, cAMP-dependent, catalytic, beta a isoform X1 [KO:K04345] [EC:2.7.11.11]
117495650  [KO:K07901]
117495651  [KO:K07901]
117495666  map2k2a; dual specificity mitogen-activated protein kinase kinase 2a [KO:K04369] [EC:2.7.12.2]
117495686  [KO:K02927]
117495884  pik3ca; phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform [KO:K00922] [EC:2.7.1.153]
117495991  atg4c; cysteine protease ATG4C [KO:K08342] [EC:3.4.22.-]
117496028  prkaa2; 5'-AMP-activated protein kinase catalytic subunit alpha-2 [KO:K07198] [EC:2.7.11.31]
117496245  [KO:K02649]
117496654  [KO:K01365] [EC:3.4.22.15]
117496796  [KO:K01365] [EC:3.4.22.15]
117497008  [KO:K05087] [EC:2.7.10.1]
117497935  [KO:K07187]
117498013  pik3c3; LOW QUALITY PROTEIN: phosphatidylinositol 3-kinase catalytic subunit type 3 [KO:K00914] [EC:2.7.1.137]
117498380  map3k7; mitogen-activated protein kinase kinase kinase 7 isoform X1 [KO:K04427] [EC:2.7.11.25]
117498385  zfyve1; zinc finger FYVE domain-containing protein 1 isoform X1 [KO:K17603]
117498401  [KO:K26797]
117498430  stx7l; syntaxin-7 [KO:K08488]
117498478  vps18; vacuolar protein sorting-associated protein 18 homolog [KO:K20181]
117498715  vamp8; vesicle-associated membrane protein 8 [KO:K08512]
117498909  atg13; autophagy-related protein 13 [KO:K08331]
117498969  [KO:K07187]
117499583  [KO:K08270]
117499592  mapk8a; mitogen-activated protein kinase 8 isoform X1 [KO:K04440] [EC:2.7.11.24]
117499636  bnip4; BCL2 interacting protein 4 [KO:K15464]
117499747  akt3a; RAC-gamma serine/threonine-protein kinase isoform X1 [KO:K04456] [EC:2.7.11.1]
117499934  [KO:K01110] [EC:3.1.3.16 3.1.3.48 3.1.3.67]
117500194  [KO:K07901]
117500212  ubb; polyubiquitin-B [KO:K08770]
117500224  [KO:K02927]
117500254  rheb; GTP-binding protein Rheb [KO:K07208]
117500289  dapk3; death-associated protein kinase 3 [KO:K08803] [EC:2.7.11.1]
117500462  rps6kb1a; ribosomal protein S6 kinase beta-1 [KO:K04688] [EC:2.7.11.1]
Compound
C00035  GDP
C00044  GTP
C00350  Phosphatidylethanolamine
C01194  1-Phosphatidyl-D-myo-inositol
C04549  1-Phosphatidyl-1D-myo-inositol 3-phosphate
C05981  Phosphatidylinositol-3,4,5-trisphosphate
Reference
PMID:15325584
  Authors
Meijer AJ, Codogno P.
  Title
Regulation and role of autophagy in mammalian cells.
  Journal
Int J Biochem Cell Biol 36:2445-62 (2004)
DOI:10.1016/j.biocel.2004.02.002
Reference
PMID:16099218
  Authors
Deretic V.
  Title
Autophagy in innate and adaptive immunity.
  Journal
Trends Immunol 26:523-8 (2005)
DOI:10.1016/j.it.2005.08.003
Reference
PMID:16200202
  Authors
Levine B, Yuan J.
  Title
Autophagy in cell death: an innocent convict?
  Journal
J Clin Invest 115:2679-88 (2005)
DOI:10.1172/JCI26390
Reference
PMID:15325588
  Authors
Tanida I, Ueno T, Kominami E.
  Title
LC3 conjugation system in mammalian autophagy.
  Journal
Int J Biochem Cell Biol 36:2503-18 (2004)
DOI:10.1016/j.biocel.2004.05.009
Reference
PMID:15928708
  Authors
Lum JJ, DeBerardinis RJ, Thompson CB.
  Title
Autophagy in metazoans: cell survival in the land of plenty.
  Journal
Nat Rev Mol Cell Biol 6:439-48 (2005)
DOI:10.1038/nrm1660
Reference
PMID:15978794
  Authors
Reggiori F, Klionsky DJ.
  Title
Autophagosomes: biogenesis from scratch?
  Journal
Curr Opin Cell Biol 17:415-22 (2005)
DOI:10.1016/j.ceb.2005.06.007
Reference
PMID:11099404
  Authors
Klionsky DJ, Emr SD.
  Title
Autophagy as a regulated pathway of cellular degradation.
  Journal
Science 290:1717-21 (2000)
DOI:10.1126/science.290.5497.1717
Reference
PMID:16125113
  Authors
Bechet D, Tassa A, Taillandier D, Combaret L, Attaix D.
  Title
Lysosomal proteolysis in skeletal muscle.
  Journal
Int J Biochem Cell Biol 37:2098-114 (2005)
DOI:10.1016/j.biocel.2005.02.029
Reference
PMID:19653858
  Authors
He C, Klionsky DJ
  Title
Regulation mechanisms and signaling pathways of autophagy.
  Journal
Annu Rev Genet 43:67-93 (2009)
DOI:10.1146/annurev-genet-102808-114910
Reference
PMID:19802558
  Authors
Yang Z, Klionsky DJ
  Title
An overview of the molecular mechanism of autophagy.
  Journal
Curr Top Microbiol Immunol 335:1-32 (2009)
DOI:10.1007/978-3-642-00302-8_1
Reference
PMID:20034776
  Authors
Yang Z, Klionsky DJ
  Title
Mammalian autophagy: core molecular machinery and signaling regulation.
  Journal
Curr Opin Cell Biol 22:124-31 (2010)
DOI:10.1016/j.ceb.2009.11.014
Reference
PMID:21187343
  Authors
Chen Y, Klionsky DJ
  Title
The regulation of autophagy - unanswered questions.
  Journal
J Cell Sci 124:161-70 (2011)
DOI:10.1242/jcs.064576
Reference
PMID:21801009
  Authors
Mizushima N, Yoshimori T, Ohsumi Y
  Title
The role of Atg proteins in autophagosome formation.
  Journal
Annu Rev Cell Dev Biol 27:107-32 (2011)
DOI:10.1146/annurev-cellbio-092910-154005
Reference
PMID:24343578
  Authors
Russell RC, Yuan HX, Guan KL
  Title
Autophagy regulation by nutrient signaling.
  Journal
Cell Res 24:42-57 (2014)
DOI:10.1038/cr.2013.166
Reference
PMID:25948417
  Authors
Noda NN, Fujioka Y
  Title
Atg1 family kinases in autophagy initiation.
  Journal
Cell Mol Life Sci 72:3083-96 (2015)
DOI:10.1007/s00018-015-1917-z
Related
pathway
tben04010  MAPK signaling pathway
tben04141  Protein processing in endoplasmic reticulum
tben04142  Lysosome
tben04150  mTOR signaling pathway
tben04910  Insulin signaling pathway
KO pathway
ko04140   

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