KEGG   PATHWAY: csem04148
Entry
csem04148                   Pathway                                
Name
Efferocytosis - Cynoglossus semilaevis (tongue sole)
Class
Cellular Processes; Transport and catabolism
Pathway map
csem04148  Efferocytosis
csem04148

Organism
Cynoglossus semilaevis (tongue sole) [GN:csem]
Gene
103383467  caspase-3-like [KO:K02187] [EC:3.4.22.56]
103391460  casp3; caspase-3 isoform X1 [KO:K02187] [EC:3.4.22.56]
103381449  casp7; caspase-7 isoform X1 [KO:K04397] [EC:3.4.22.60]
103389354  caspase-7-like [KO:K04397] [EC:3.4.22.60]
103378482  caspase-1-like [KO:K01370] [EC:3.4.22.36]
103377952  pannexin-1-like [KO:K03443]
103384057  panx1; pannexin-1 [KO:K03443]
103378528  p2ry2; P2Y purinoceptor 2 isoform X1 [KO:K04269]
103378525  p2ry6; P2Y purinoceptor 6 [KO:K04272]
103378104  P2Y purinoceptor 12-like [KO:K04298]
103383771  sphk1; sphingosine kinase 1 [KO:K04718] [EC:2.7.1.91]
103393189  sphingosine kinase 1-like [KO:K04718] [EC:2.7.1.91]
103388269  sphingosine kinase 2-like [KO:K04718] [EC:2.7.1.91]
103398542  s1pr1; sphingosine 1-phosphate receptor 1 [KO:K04288]
103383218  pla2g6; 85/88 kDa calcium-independent phospholipase A2 isoform X2 [KO:K16343] [EC:3.1.1.4]
103384135  ATP-binding cassette sub-family A member 1-like [KO:K05641]
103395872  abca7; LOW QUALITY PROTEIN: ATP-binding cassette sub-family A member 7 [KO:K05641]
103390832  ATP-binding cassette sub-family A member 1-like [KO:K05641]
103390790  ATP-binding cassette sub-family A member 1-like isoform X1 [KO:K05641]
103377555  adam17; disintegrin and metalloproteinase domain-containing protein 17 isoform X2 [KO:K06059] [EC:3.4.24.86]
103381366  disintegrin and metalloproteinase domain-containing protein 17-like isoform X3 [KO:K06059] [EC:3.4.24.86]
103378728  adam10; disintegrin and metalloproteinase domain-containing protein 10 [KO:K06704] [EC:3.4.24.81]
103380473  disintegrin and metalloproteinase domain-containing protein 10-like [KO:K06704] [EC:3.4.24.81]
103397216  disintegrin and metalloproteinase domain-containing protein 10-like [KO:K06704] [EC:3.4.24.81]
103385231  nfatc2; nuclear factor of activated T-cells, cytoplasmic 2 isoform X1 [KO:K17332]
103386737  nuclear factor of activated T-cells, cytoplasmic 2-like [KO:K17332]
103393969  nuclear factor of activated T-cells, cytoplasmic 1-like isoform X2 [KO:K04446]
103388659  nuclear factor of activated T-cells, cytoplasmic 1-like isoform X1 [KO:K04446]
103379683  LOW QUALITY PROTEIN: nuclear factor of activated T-cells, cytoplasmic 3-like [KO:K17333]
103379360  nfatc3; nuclear factor of activated T-cells, cytoplasmic 3 [KO:K17333]
103396729  nfatc4; nuclear factor of activated T-cells, cytoplasmic 4 [KO:K17334]
103376909  hif1a; hypoxia-inducible factor 1-alpha [KO:K08268]
103381530  epas1; endothelial PAS domain-containing protein 1 [KO:K08268]
103377905  hypoxia-inducible factor 1-alpha-like [KO:K08268]
103388280  aryl hydrocarbon receptor nuclear translocator-like isoform X5 [KO:K09097]
103391052  epo; erythropoietin [KO:K05437]
103393663  LOW QUALITY PROTEIN: erythropoietin receptor-like [KO:K05079]
103397589  tyrosine-protein kinase JAK2-like [KO:K04447] [EC:2.7.10.2]
103389123  jak2; tyrosine-protein kinase JAK2 [KO:K04447] [EC:2.7.10.2]
103393219  mitogen-activated protein kinase 1-like [KO:K04371] [EC:2.7.11.24]
103397828  LOW QUALITY PROTEIN: mitogen-activated protein kinase 1-like [KO:K04371] [EC:2.7.11.24]
103385607  CCAAT/enhancer-binding protein beta-like isoform X2 [KO:K10048]
103385631  pparg; peroxisome proliferator-activated receptor gamma [KO:K08530]
103389488  rxra; retinoic acid receptor RXR-alpha isoform X1 [KO:K08524]
103388487  LOW QUALITY PROTEIN: retinoic acid receptor RXR-beta-A-like [KO:K08524]
103379088  EGF-like repeat and discoidin I-like domain-containing protein 3 isoform X1 [KO:K17253]
103379795  mfge8; lactadherin isoform X2 [KO:K17253]
103378948  gas6; growth arrest-specific protein 6 [KO:K05464]
103387569  tyrosine-protein kinase Mer [KO:K05117] [EC:2.7.10.1]
103382725  cd36; platelet glycoprotein 4 [KO:K06259]
103393533  thrombospondin-1-like [KO:K16857]
103381239  thrombospondin-1-like [KO:K16857]
103380238  map2k1; dual specificity mitogen-activated protein kinase kinase 1 [KO:K04368] [EC:2.7.12.2]
103376625  map2k2; dual specificity mitogen-activated protein kinase kinase 2 [KO:K04369] [EC:2.7.12.2]
103395284  ptgs2; prostaglandin G/H synthase 2 [KO:K11987] [EC:1.14.99.1]
103389770  ptger2; prostaglandin E2 receptor EP2 subtype [KO:K04259]
103390075  ptger4; prostaglandin E2 receptor EP4 subtype [KO:K04261]
103395884  prostaglandin E2 receptor EP4 subtype-like [KO:K04261]
103397657  prostaglandin E2 receptor EP4 subtype-like [KO:K04261]
103396001  prostaglandin E2 receptor EP4 subtype-like [KO:K04261]
103380388  dnmt3a; DNA (cytosine-5)-methyltransferase 3A isoform X1 [KO:K17398] [EC:2.1.1.37]
103381119  DNA (cytosine-5)-methyltransferase 3A-like isoform X4 [KO:K17398] [EC:2.1.1.37]
103391910  cyclic AMP-responsive element-binding protein 1-like isoform X1 [KO:K05870]
103389560  cyclic AMP-responsive element-binding protein 1 isoform X1 [KO:K05870]
103377845  transforming growth factor beta-1 [KO:K13375]
103381587  sarcoplasmic/endoplasmic reticulum calcium ATPase 1 isoform X1 [KO:K05853] [EC:7.2.2.10]
103395187  atp2a3; sarcoplasmic/endoplasmic reticulum calcium ATPase 3 isoform X1 [KO:K05853] [EC:7.2.2.10]
103393216  atp2a1; sarcoplasmic/endoplasmic reticulum calcium ATPase 1 isoform X1 [KO:K05853] [EC:7.2.2.10]
103383309  sarcoplasmic/endoplasmic reticulum calcium ATPase 2-like [KO:K05853] [EC:7.2.2.10]
103389400  sarcoplasmic/endoplasmic reticulum calcium ATPase 2 isoform X2 [KO:K05853] [EC:7.2.2.10]
103397440  atp2a2; sarcoplasmic/endoplasmic reticulum calcium ATPase 2 isoform X1 [KO:K05853] [EC:7.2.2.10]
103381519  calcium/calmodulin-dependent protein kinase type II subunit gamma isoform X1 [KO:K04515] [EC:2.7.11.17]
103383722  calcium/calmodulin-dependent protein kinase type II delta 2 chain isoform X1 [KO:K04515] [EC:2.7.11.17]
103386999  calcium/calmodulin-dependent protein kinase type II subunit gamma isoform X8 [KO:K04515] [EC:2.7.11.17]
103388894  calcium/calmodulin-dependent protein kinase type II delta 1 chain isoform X1 [KO:K04515] [EC:2.7.11.17]
103397867  LOW QUALITY PROTEIN: calcium/calmodulin-dependent protein kinase type II delta chain [KO:K04515] [EC:2.7.11.17]
103395616  camk2a; calcium/calmodulin-dependent protein kinase type II subunit alpha [KO:K04515] [EC:2.7.11.17]
103389653  camk2b; calcium/calmodulin-dependent protein kinase type II subunit beta isoform X1 [KO:K04515] [EC:2.7.11.17]
103380409  mitogen-activated protein kinase 12 [KO:K04441] [EC:2.7.11.24]
103382962  mitogen-activated protein kinase 11-like [KO:K04441] [EC:2.7.11.24]
103382963  mitogen-activated protein kinase 12-like [KO:K04441] [EC:2.7.11.24]
103384903  mitogen-activated protein kinase 13-like [KO:K04441] [EC:2.7.11.24]
103384606  mitogen-activated protein kinase 14A-like isoform X1 [KO:K04441] [EC:2.7.11.24]
103386138  mitogen-activated protein kinase 14A isoform X1 [KO:K04441] [EC:2.7.11.24]
103386073  mapkapk2; MAP kinase-activated protein kinase 2 [KO:K04443] [EC:2.7.11.1]
103387317  alox5; arachidonate 5-lipoxygenase [KO:K00461] [EC:1.13.11.34]
103380359  dusp8; dual specificity protein phosphatase 8 isoform X1 [KO:K04459] [EC:3.1.3.16 3.1.3.48]
103382470  dusp16; dual specificity protein phosphatase 16 [KO:K04459] [EC:3.1.3.16 3.1.3.48]
103384075  dusp5; dual specificity protein phosphatase 5 [KO:K04459] [EC:3.1.3.16 3.1.3.48]
103385438  dual specificity protein phosphatase 7-like [KO:K04459] [EC:3.1.3.16 3.1.3.48]
103386366  dusp7; dual specificity protein phosphatase 7 [KO:K04459] [EC:3.1.3.16 3.1.3.48]
103393504  MAP kinase phosphatase with leucine-rich repeats protein 3-like [KO:K04459] [EC:3.1.3.16 3.1.3.48]
103390320  dual specificity protein phosphatase 4 [KO:K04459] [EC:3.1.3.16 3.1.3.48]
103397797  dusp2; dual specificity protein phosphatase 2 [KO:K04459] [EC:3.1.3.16 3.1.3.48]
103382823  ano6; anoctamin-6 [KO:K19500]
103380196  anoctamin-3-like [KO:K19498]
103383089  anoctamin-4-like isoform X1 [KO:K19499]
103378776  anoctamin-5-like isoform X1 [KO:K19480]
103380203  ano5; anoctamin-5 isoform X1 [KO:K19480]
103378393  ano7; anoctamin-7 isoform X1 [KO:K19501]
103384790  anoctamin-7 [KO:K19501]
103379203  anoctamin-9-like [KO:K19503]
103380250  anoctamin-9-like [KO:K19503]
103399913  bsg; basigin isoform X1 [KO:K06535]
103393946  XK-related protein 8-like [KO:K26813]
103393983  XK-related protein 8-like isoform X1 [KO:K26813]
103377092  xkr9; XK-related protein 9 [KO:K26814]
103385143  xkr7; LOW QUALITY PROTEIN: XK-related protein 7 [KO:K26811]
103385616  XK-related protein 7-like [KO:K26811]
103389677  XK-related protein 6-like [KO:K26811]
103396615  xkr4; XK-related protein 4 [KO:K26811]
103398689  xkr6; XK-related protein 6 [KO:K26811]
103377244  atp8a2; phospholipid-transporting ATPase IB isoform X2 [KO:K14802] [EC:7.6.2.1]
103390601  atp8a1; phospholipid-transporting ATPase IA isoform X4 [KO:K14802] [EC:7.6.2.1]
103389322  probable phospholipid-transporting ATPase IH isoform X2 [KO:K26934] [EC:7.6.2.1]
103390766  atp11c; phospholipid-transporting ATPase IG [KO:K26934] [EC:7.6.2.1]
103391719  probable phospholipid-transporting ATPase IH isoform X1 [KO:K26934] [EC:7.6.2.1]
103399547  atp11b; probable phospholipid-transporting ATPase IF isoform X2 [KO:K26934] [EC:7.6.2.1]
103381310  cell cycle control protein 50A-like [KO:K26935]
103384016  cell cycle control protein 50A-like [KO:K26935]
103378935  pros1; vitamin K-dependent protein S [KO:K03908]
103392367  itgav; integrin alpha-V [KO:K06487]
103381463  itgb3; integrin beta-3 [KO:K06493]
103393124  LOW QUALITY PROTEIN: integrin beta-3-like [KO:K06493]
103391620  itgb5; integrin beta-5 [KO:K06588]
103377849  axl; tyrosine-protein kinase receptor UFO [KO:K05115] [EC:2.7.10.1]
103382202  tyro3; tyrosine-protein kinase receptor TYRO3 [KO:K05116] [EC:2.7.10.1]
103388871  adgrb1; brain-specific angiogenesis inhibitor 1 isoform X1 [KO:K04596]
103386447  stab1; LOW QUALITY PROTEIN: stabilin-1 [KO:K19020]
103382460  LOW QUALITY PROTEIN: stabilin-2-like [KO:K19013]
103394159  focal adhesion kinase 1-like isoform X1 [KO:K05725] [EC:2.7.10.2]
103388446  ptk2; focal adhesion kinase 1 [KO:K05725] [EC:2.7.10.2]
103379847  bcar1; breast cancer anti-estrogen resistance protein 1 isoform X1 [KO:K05726]
103377807  adapter molecule crk-like [KO:K04438]
103389418  crkl; crk-like protein [KO:K04438]
103395373  adapter molecule crk-like [KO:K04438]
103394596  engulfment and cell motility protein 1 isoform X1 [KO:K12366]
103381644  dock1; dedicator of cytokinesis protein 1 isoform X2 [KO:K13708]
103382358  ras-related C3 botulinum toxin substrate 1 [KO:K04392]
103397120  rho-related BTB domain-containing protein 1-like [KO:K04392]
103393020  ras-related C3 botulinum toxin substrate 1-like [KO:K04392]
103381952  disintegrin and metalloproteinase domain-containing protein 9-like isoform X1 [KO:K06834] [EC:3.4.24.-]
103398019  adam9; disintegrin and metalloproteinase domain-containing protein 9 isoform X1 [KO:K06834] [EC:3.4.24.-]
103398957  LOW QUALITY PROTEIN: uncharacterized protein LOC103398957 [KO:K06834] [EC:3.4.24.-]
103399827  calreticulin-like [KO:K08057]
103393161  calreticulin-like [KO:K08057]
103396470  calreticulin-like [KO:K08057]
103385104  low-density lipoprotein receptor-related protein 1-like [KO:K04550]
103386004  low-density lipoprotein receptor-related protein 1-like [KO:K04550]
103380237  megf11; multiple epidermal growth factor-like domains protein 11 isoform X3 [KO:K24068]
103389855  megf10; multiple epidermal growth factor-like domains protein 10 [KO:K24068]
103378970  multiple epidermal growth factor-like domains protein 11 [KO:K24068]
103378072  scarf1; scavenger receptor class F member 1 [KO:K24318]
103392416  LOW QUALITY PROTEIN: PTB domain-containing engulfment adapter protein 1-like [KO:K23285]
103384635  PTB domain-containing engulfment adapter protein 1-like [KO:K23285]
103394455  ras-related protein Rab-5A [KO:K07887]
103388351  ras-related protein Rab-5A [KO:K07887]
103391561  ras-related protein Rab-5B-like [KO:K07888]
103381469  ras-related protein Rab-5C-like [KO:K07889]
103393176  ras-related protein Rab-5C [KO:K07889]
103378643  tgfbrap1; transforming growth factor-beta receptor-associated protein 1 [KO:K20177]
103378747  transforming growth factor-beta receptor-associated protein 1-like isoform X2 [KO:K20177]
103387710  vps8; vacuolar protein sorting-associated protein 8 homolog [KO:K20178]
103395047  vps11; vacuolar protein sorting-associated protein 11 homolog [KO:K20179]
103389808  vps16; vacuolar protein sorting-associated protein 16 homolog [KO:K20180]
103380760  vps18; vacuolar protein sorting-associated protein 18 homolog [KO:K20181]
103397703  vps33a; vacuolar protein sorting-associated protein 33A [KO:K20182]
103390174  ras-related protein Rab-14 [KO:K07881]
103398011  ras-related protein Rab-14-like [KO:K07881]
103381569  vps39; vam6/Vps39-like protein isoform X1 [KO:K20183]
103377419  vps41; vacuolar protein sorting-associated protein 41 homolog isoform X1 [KO:K20184]
103385930  ras-related protein Rab-7a-like [KO:K07897]
103386171  ras-related protein Rab-7a [KO:K07897]
103377571  pqlc2l; putative uncharacterized protein PQLC2L [KO:K23678]
103384924  pqlc2; lysosomal amino acid transporter 1 homolog [KO:K23678]
103382257  arginase-1-like [KO:K01476] [EC:3.5.3.1]
103381296  arg2; arginase-2, mitochondrial [KO:K01476] [EC:3.5.3.1]
103384438  odc1; ornithine decarboxylase [KO:K01581] [EC:4.1.1.17]
103387944  ornithine decarboxylase-like [KO:K01581] [EC:4.1.1.17]
103380340  cholesterol 25-hydroxylase-like protein 1, member 2 [KO:K10223] [EC:1.14.99.38]
103379449  cholesterol 25-hydroxylase-like protein 1, member 1 [KO:K10223] [EC:1.14.99.38]
103382303  ch25h; cholesterol 25-hydroxylase [KO:K10223] [EC:1.14.99.38]
103389923  cholesterol 25-hydroxylase-like protein 2 [KO:K10223] [EC:1.14.99.38]
103397457  cholesterol 25-hydroxylase-like protein [KO:K10223] [EC:1.14.99.38]
103398631  nr1h3; oxysterols receptor LXR-alpha [KO:K08536]
103380127  cpt1b; carnitine O-palmitoyltransferase 1, muscle isoform [KO:K08765] [EC:2.3.1.21]
103382008  carnitine O-palmitoyltransferase 1, liver isoform-like [KO:K08765] [EC:2.3.1.21]
103380373  cpt1a; carnitine O-palmitoyltransferase 1, liver isoform isoform X1 [KO:K08765] [EC:2.3.1.21]
103393672  carnitine O-palmitoyltransferase 1, liver isoform-like [KO:K08765] [EC:2.3.1.21]
103379188  LOW QUALITY PROTEIN: cytochrome b-c1 complex subunit Rieske, mitochondrial-like [KO:K00411] [EC:7.1.1.8]
103379190  cytochrome b-c1 complex subunit Rieske, mitochondrial-like [KO:K00411] [EC:7.1.1.8]
103380415  LOW QUALITY PROTEIN: cytochrome b-c1 complex subunit Rieske, mitochondrial [KO:K00411] [EC:7.1.1.8]
103391355  sirt1; LOW QUALITY PROTEIN: NAD-dependent protein deacetylase sirtuin-1 [KO:K11411] [EC:2.3.1.286]
103396165  pre-B-cell leukemia transcription factor 1 [KO:K09355]
103386072  il10; interleukin-10 [KO:K05443]
103382254  lysosomal acid lipase/cholesteryl ester hydrolase-like [KO:K01052] [EC:3.1.1.13]
103379465  group XV phospholipase A2 [KO:K06129] [EC:3.1.1.5]
103384615  ppard; peroxisome proliferator-activated receptor delta [KO:K04504]
103381674  solute carrier family 2, facilitated glucose transporter member 1-like [KO:K07299]
103384820  solute carrier family 2, facilitated glucose transporter member 1-like [KO:K07299]
103386593  solute carrier family 2, facilitated glucose transporter member 1 [KO:K07299]
103385208  monocarboxylate transporter 1-like [KO:K08179]
103386560  slc16a1; monocarboxylate transporter 1 [KO:K08179]
103388196  serine/threonine-protein kinase Sgk1-like [KO:K13302] [EC:2.7.11.1]
103393944  serine/threonine-protein kinase Sgk1-like isoform X1 [KO:K13302] [EC:2.7.11.1]
103398704  sgk1; serine/threonine-protein kinase Sgk1 isoform X3 [KO:K13302] [EC:2.7.11.1]
103384280  platelet endothelial cell adhesion molecule-like isoform X1 [KO:K06471]
103393198  platelet endothelial cell adhesion molecule-like isoform X1 [KO:K06471]
103387950  ptpn6; tyrosine-protein phosphatase non-receptor type 6 [KO:K05697] [EC:3.1.3.48]
103384897  tyrosine-protein phosphatase non-receptor type 11-like isoform X1 [KO:K07293] [EC:3.1.3.48]
103389968  ptpn11; tyrosine-protein phosphatase non-receptor type 11 isoform X1 [KO:K07293] [EC:3.1.3.48]
Compound
C00002  ATP
C00003  NAD+
C00019  S-Adenosyl-L-methionine
C00031  D-Glucose
C00062  L-Arginine
C00073  L-Methionine
C00075  UTP
C00077  L-Ornithine
C00134  Putrescine
C00162  Fatty acid
C00186  (S)-Lactate
C00187  Cholesterol
C00584  Prostaglandin E2
C02530  Cholesterol ester
C02737  Phosphatidylserine
C04230  1-Acyl-sn-glycero-3-phosphocholine
C06124  Sphingosine 1-phosphate
C06314  Lipoxin A4
C15519  25-Hydroxycholesterol
C15610  Cholest-5-ene-3beta,26-diol
C18178  Resolvin D1
Reference
PMID:31822793
  Authors
Doran AC, Yurdagul A Jr, Tabas I
  Title
Efferocytosis in health and disease.
  Journal
Nat Rev Immunol 20:254-267 (2020)
DOI:10.1038/s41577-019-0240-6
Reference
PMID:36028471
  Authors
Zhang J, Ding W, Zhao M, Liu J, Xu Y, Wan J, Wang M
  Title
Mechanisms of efferocytosis in determining inflammation resolution: Therapeutic potential and the association with cardiovascular disease.
  Journal
Br J Pharmacol 179:5151-5171 (2022)
DOI:10.1111/bph.15939
Reference
PMID:30165442
  Authors
Kawano M, Nagata S
  Title
Efferocytosis and autoimmune disease.
  Journal
Int Immunol 30:551-558 (2018)
DOI:10.1093/intimm/dxy055
Reference
PMID:35650427
  Authors
Mehrotra P, Ravichandran KS
  Title
Drugging the efferocytosis process: concepts and opportunities.
  Journal
Nat Rev Drug Discov 21:601-620 (2022)
DOI:10.1038/s41573-022-00470-y
Reference
PMID:28496201
  Authors
Park SY, Kim IS
  Title
Engulfment signals and the phagocytic machinery for apoptotic cell clearance.
  Journal
Exp Mol Med 49:e331 (2017)
DOI:10.1038/emm.2017.52
Reference
PMID:28137963
  Authors
Kojima Y, Weissman IL, Leeper NJ
  Title
The Role of Efferocytosis in Atherosclerosis.
  Journal
Circulation 135:476-489 (2017)
DOI:10.1161/CIRCULATIONAHA.116.025684
Related
pathway
csem00010  Glycolysis / Gluconeogenesis
csem04140  Autophagy - animal
csem04145  Phagosome
KO pathway
ko04148   
LinkDB

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