KEGG   PATHWAY: csem04145
Entry
csem04145                   Pathway                                
Name
Phagosome - Cynoglossus semilaevis (tongue sole)
Description
Phagocytosis is the process of taking in relatively large particles by a cell, and is a central mechanism in the tissue remodeling, inflammation, and defense against infectious agents. A phagosome is formed when the specific receptors on the phagocyte surface recognize ligands on the particle surface. After formation, nascent phagosomes progressively acquire digestive characteristics. This maturation of phagosomes involves regulated interaction with the other membrane organelles, including recycling endosomes, late endosomes and lysosomes. The fusion of phagosomes and lysosomes releases toxic products that kill most bacteria and degrade them into fragments. However, some bacteria have strategies to escape the bactericidal mechanisms associated with phagocytosis and survive within host phagocytes.
Class
Cellular Processes; Transport and catabolism
Pathway map
csem04145  Phagosome
csem04145

Other DBs
GO: 0045335
Organism
Cynoglossus semilaevis (tongue sole) [GN:csem]
Gene
103386149  vamp3; vesicle-associated membrane protein 3 [KO:K13505]
103394508  syntaxin-12-like [KO:K13813]
103388880  syntaxin-12-like isoform X1 [KO:K13813]
103380753  stx7; syntaxin-7 [KO:K08488]
103383494  actin, cytoplasmic 2 [KO:K05692]
103393304  actb; actin, beta [KO:K05692]
103392688  coronin-1A-like [KO:K13882]
103386247  stx18; syntaxin-18 [KO:K08492]
103376643  vesicle-trafficking protein SEC22b-B isoform X1 [KO:K08517]
103396130  vesicle-trafficking protein SEC22b-like isoform X1 [KO:K08517]
103393860  H-2 class I histocompatibility antigen, Q9 alpha chain-like [KO:K06751]
103390006  HLA class II histocompatibility antigen, DP alpha 1 chain-like precursor [KO:K06752]
103398979  H-2 class II histocompatibility antigen, E-S beta chain-like precursor [KO:K06752]
103388185  H-2 class II histocompatibility antigen, A-U alpha chain-like [KO:K06752]
103388186  class II histocompatibility antigen, B-L beta chain-like [KO:K06752]
103398980  mamu class II histocompatibility antigen, DR alpha chain-like [KO:K06752]
103390015  H-2 class II histocompatibility antigen, E-S beta chain-like [KO:K06752]
103388958  H-2 class II histocompatibility antigen, E-S beta chain-like isoform X1 [KO:K06752]
103388961  H-2 class II histocompatibility antigen, A-U alpha chain-like [KO:K06752]
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]
103380151  eea1; early endosome antigen 1 [KO:K12478]
103388478  pik3c3; phosphatidylinositol 3-kinase catalytic subunit type 3 isoform X1 [KO:K00914] [EC:2.7.1.137]
103377341  transferrin receptor protein 1-like [KO:K06503]
103396196  transferrin receptor protein 1-like [KO:K06503]
103392699  hgs; hepatocyte growth factor-regulated tyrosine kinase substrate isoform X1 [KO:K12182]
103377240  atp6v1a; V-type proton ATPase catalytic subunit A [KO:K02145] [EC:7.1.2.2]
103395476  V-type proton ATPase catalytic subunit A-like [KO:K02145] [EC:7.1.2.2]
103387792  V-type proton ATPase subunit B, brain isoform-like [KO:K02147]
103389142  atp6v1b2; V-type proton ATPase subunit B, brain isoform [KO:K02147]
103384428  V-type proton ATPase subunit C 1-B-like [KO:K02148]
103388637  atp6v1c1; V-type proton ATPase subunit C 1 [KO:K02148]
103394440  V-type proton ATPase subunit C 1-A-like [KO:K02148]
103381168  atp6v1d; V-type proton ATPase subunit D [KO:K02149]
103380037  V-type proton ATPase subunit E 1-like [KO:K02150]
103382684  V-type proton ATPase subunit E 1-like [KO:K02150]
103382591  atp6v1f; V-type proton ATPase subunit F [KO:K02151]
103390364  atp6v1g1; V-type proton ATPase subunit G 1 [KO:K02152]
103383197  V-type proton ATPase subunit e 2-like [KO:K02153]
103391409  V-type proton ATPase subunit e 1-like [KO:K02153]
103381661  V-type proton ATPase 116 kDa subunit a-like isoform X1 [KO:K02154]
103390970  tcirg1; V-type proton ATPase 116 kDa subunit a [KO:K02154]
103390475  V-type proton ATPase 116 kDa subunit a-like [KO:K02154]
103398615  atp6v0a2; LOW QUALITY PROTEIN: V-type proton ATPase 116 kDa subunit a [KO:K02154]
103393166  V-type proton ATPase 116 kDa subunit a-like isoform X1 [KO:K02154]
103398487  atp6v0d1; V-type proton ATPase subunit d 1 [KO:K02146]
103396412  atp6v1h; V-type proton ATPase subunit H isoform X1 [KO:K02144]
103381986  V-type proton ATPase 16 kDa proteolipid subunit-like [KO:K02155]
103393222  V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
103396365  atp6v0b; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
103385173  V-type proton ATPase subunit S1-like [KO:K03662]
103384534  atp6ap1; V-type proton ATPase subunit S1 [KO:K03662]
103385930  ras-related protein Rab-7a-like [KO:K07897]
103386171  ras-related protein Rab-7a [KO:K07897]
103378070  RILP-like protein 1 [KO:K13883]
103379478  dync1h1; LOW QUALITY PROTEIN: cytoplasmic dynein 1 heavy chain 1 [KO:K10413]
103378540  dync2h1; cytoplasmic dynein 2 heavy chain 1 [KO:K10414]
103392097  cytoplasmic dynein 1 intermediate chain 2 isoform X1 [KO:K10415]
103395899  cytoplasmic dynein 1 intermediate chain 2-like isoform X1 [KO:K10415]
103394120  dync1i1; cytoplasmic dynein 1 intermediate chain 1 isoform X2 [KO:K10415]
103378661  dync1li2; cytoplasmic dynein 1 light intermediate chain 2 isoform X1 [KO:K10416]
103394611  cytoplasmic dynein 1 light intermediate chain 1-like [KO:K10416]
103376847  tubulin alpha-1B chain-like [KO:K07374]
103376849  tubulin alpha-1B chain-like [KO:K07374]
103385187  tubulin alpha-1A chain [KO:K07374]
103385219  tubulin alpha-1C chain-like [KO:K07374]
103385300  tubulin alpha chain-like [KO:K07374]
103384708  tubulin alpha-1C chain-like isoform X1 [KO:K07374]
103384726  tubulin alpha-1C chain-like [KO:K07374]
103389754  tubulin alpha-1A chain-like [KO:K07374]
103392215  tubulin alpha chain-like [KO:K07374]
103392216  tubulin alpha chain [KO:K07374]
103391677  tubulin alpha chain-like [KO:K07374]
103389240  tuba4a; tubulin alpha-4A chain [KO:K07374]
103391404  tubulin alpha-1C chain-like [KO:K07374]
103379009  tubulin beta-4B chain [KO:K07375]
103382200  tubulin beta chain-like [KO:K07375]
103383945  tubulin beta-4B chain-like [KO:K07375]
103393554  tubulin beta chain-like [KO:K07375]
103387978  tubb; tubulin beta chain isoform X1 [KO:K07375]
103392716  tubulin beta-4B chain-like [KO:K07375]
103392997  tubulin beta chain-like [KO:K07375]
103386687  tubulin beta chain-like [KO:K07375]
103393500  tubulin beta-4 chain-like [KO:K07375]
103396292  tubulin beta chain-like isoform X1 [KO:K07375]
103398887  tubulin beta-4B chain-like [KO:K07375]
103393868  tubulin beta chain-like [KO:K07375]
103390553  lamp2; lysosome-associated membrane glycoprotein 2 [KO:K06528]
103391683  lysosome-associated membrane glycoprotein 1-like isoform X1 [KO:K06528]
103378644  lamp1; lysosome-associated membrane glycoprotein 1 [KO:K06528]
103391640  pikfyve; 1-phosphatidylinositol 3-phosphate 5-kinase isoform X1 [KO:K00921] [EC:2.7.1.150]
103387926  m6pr; cation-dependent mannose-6-phosphate receptor [KO:K10089]
103397851  nos1; nitric oxide synthase, brain isoform X2 [KO:K13240] [EC:1.14.13.39]
103396877  LOW QUALITY PROTEIN: nitric oxide synthase, brain-like [KO:K13240] [EC:1.14.13.39]
103397801  catl; cathepsin L precursor [KO:K01365] [EC:3.4.22.15]
103376680  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
103378601  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
103397133  cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
103394262  cathepsin L1-like [KO:K01368] [EC:3.4.22.27]
103394264  cathepsin S-like [KO:K01368] [EC:3.4.22.27]
103388697  cathepsin S-like isoform X1 [KO:K01368] [EC:3.4.22.27]
103386165  sec61a1; protein transport protein Sec61 subunit alpha [KO:K10956]
103388136  sec61b; protein transport protein Sec61 subunit beta [KO:K09481]
107988395  sec61g; protein transport protein Sec61 subunit gamma [KO:K07342]
103388956  antigen peptide transporter 1-like [KO:K05653] [EC:7.4.2.14]
103393838  antigen peptide transporter 2-like isoform X1 [KO:K05654] [EC:7.4.2.14]
103398854  antigen peptide transporter 2-like [KO:K05654] [EC:7.4.2.14]
103399827  calreticulin-like [KO:K08057]
103393161  calreticulin-like [KO:K08057]
103396470  calreticulin-like [KO:K08057]
103391070  canx; calnexin isoform X1 [KO:K08054]
103381978  integrin alpha-M-like [KO:K06461]
103392358  itgb2; integrin beta-2 [KO:K06464]
103383921  complement C3-like [KO:K03990]
103377957  colec11; collectin-11 isoform X1 [KO:K10066]
103377443  colec12; collectin-12 [KO:K10062]
103396429  collectin-12-like [KO:K10062]
103392367  itgav; integrin alpha-V [KO:K06487]
103397740  itga2; integrin alpha-2 [KO:K06481]
103385260  integrin alpha-5-like isoform X1 [KO:K06484]
103386290  integrin alpha-5-like [KO:K06484]
103377032  itgb1; integrin beta-1 isoform X1 [KO:K05719]
103396775  integrin beta-1-like [KO:K05719]
103381463  itgb3; integrin beta-3 [KO:K06493]
103393124  LOW QUALITY PROTEIN: integrin beta-3-like [KO:K06493]
103391620  itgb5; integrin beta-5 [KO:K06588]
103393533  thrombospondin-1-like [KO:K16857]
103381239  thrombospondin-1-like [KO:K16857]
103387278  thbs2; thrombospondin-2 isoform X1 [KO:K04659]
103398290  thbs4; thrombospondin-4 [KO:K04659]
103388114  thbs3; thrombospondin-3 [KO:K04659]
103395640  comp; cartilage oligomeric matrix protein [KO:K04659]
103381578  thrombospondin-2-like [KO:K04659]
103390445  thrombospondin-4-B [KO:K04659]
103388693  toll-like receptor 2 type-1 [KO:K10159]
103377459  macrophage mannose receptor 1-like [KO:K06560]
103377467  LOW QUALITY PROTEIN: macrophage mannose receptor 1-like [KO:K06560]
103378679  pla2r1; secretory phospholipase A2 receptor [KO:K06560]
103396435  macrophage mannose receptor 1-like [KO:K06560]
103390400  macrophage mannose receptor 1-like isoform X1 [KO:K06560]
103393129  LOW QUALITY PROTEIN: C-type mannose receptor 2 [KO:K06560]
103391491  marco; macrophage receptor MARCO [KO:K13884]
103389662  scarb1; scavenger receptor class B member 1 isoform X2 [KO:K13885]
103382725  cd36; platelet glycoprotein 4 [KO:K06259]
103379180  cytochrome b-245 light chain [KO:K08009]
103389690  cytochrome b-245 heavy chain [KO:K21421] [EC:1.-.-.-]
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]
103395607  ncf1; neutrophil cytosol factor 1 [KO:K08011]
103377071  LOW QUALITY PROTEIN: neutrophil cytosol factor 2-like [KO:K08010]
103383214  ncf4; LOW QUALITY PROTEIN: neutrophil cytosol factor 4 [KO:K08012]
Compound
C04549  1-Phosphatidyl-1D-myo-inositol 3-phosphate
Reference
PMID:15894272
  Authors
Stuart LM, Ezekowitz RA
  Title
Phagocytosis: elegant complexity.
  Journal
Immunity 22:539-50 (2005)
DOI:10.1016/j.immuni.2005.05.002
Reference
PMID:10684585
  Authors
Tjelle TE, Lovdal T, Berg T
  Title
Phagosome dynamics and function.
  Journal
Bioessays 22:255-63 (2000)
DOI:10.1002/(SICI)1521-1878(200003)22:3<255::AID-BIES7>3.0.CO;2-R
Reference
PMID:18492791
  Authors
Dupuy AG, Caron E
  Title
Integrin-dependent phagocytosis: spreading from microadhesion to new concepts.
  Journal
J Cell Sci 121:1773-83 (2008)
DOI:10.1242/jcs.018036
Reference
PMID:15036145
  Authors
Brumell JH, Grinstein S
  Title
Salmonella redirects phagosomal maturation.
  Journal
Curr Opin Microbiol 7:78-84 (2004)
DOI:10.1016/j.mib.2003.12.005
Reference
PMID:17245426
  Authors
Huynh KK, Eskelinen EL, Scott CC, Malevanets A, Saftig P, Grinstein S
  Title
LAMP proteins are required for fusion of lysosomes with phagosomes.
  Journal
EMBO J 26:313-24 (2007)
DOI:10.1038/sj.emboj.7601511
Reference
PMID:17637737
  Authors
Luzio JP, Pryor PR, Bright NA
  Title
Lysosomes: fusion and function.
  Journal
Nat Rev Mol Cell Biol 8:622-32 (2007)
DOI:10.1038/nrm2217
Reference
PMID:18513324
  Authors
Sumimoto H
  Title
Structure, regulation and evolution of Nox-family NADPH oxidases that produce reactive oxygen species.
  Journal
FEBS J 275:3249-77 (2008)
DOI:10.1111/j.1742-4658.2008.06488.x
Related
pathway
csem04142  Lysosome
csem04144  Endocytosis
csem04620  Toll-like receptor signaling pathway
KO pathway
ko04145   
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