KEGG   PATHWAY: uar04145
Entry
uar04145                    Pathway                                
Name
Phagosome - Ursus americanus (American black bear)
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
uar04145  Phagosome
uar04145

Other DBs
GO: 0045335
Organism
Ursus americanus (American black bear) [GN:uar]
Gene
123796168  VAMP3; vesicle-associated membrane protein 3 [KO:K13505]
123782236  STX12; syntaxin-12 [KO:K13813]
123797580  STX7; syntaxin-7 [KO:K08488]
123802532  ACTB; actin, cytoplasmic 1 [KO:K05692]
123777926  ACTG1; actin, cytoplasmic 2 [KO:K05692]
123784596  CORO1A; coronin-1A [KO:K13882]
123775806  STX18; syntaxin-18 isoform X1 [KO:K08492]
123795001  SEC22B; vesicle-trafficking protein SEC22b [KO:K08517]
123785045  class I histocompatibility antigen, Gogo-OKO alpha chain-like [KO:K06751]
123793445  HLA class I histocompatibility antigen, B alpha chain-like [KO:K06751]
123794160  uncharacterized protein LOC123794160 [KO:K06751]
123780238  H-2 class I histocompatibility antigen, Q10 alpha chain-like [KO:K06751]
123791023  patr class I histocompatibility antigen, A-2 alpha chain-like [KO:K06751]
123791025  LOW QUALITY PROTEIN: class I histocompatibility antigen, Gogo-B*0103 alpha chain-like [KO:K06751]
123791026  DLA class I histocompatibility antigen, A9/A9 alpha chain-like isoform X1 [KO:K06751]
123791029  DLA class I histocompatibility antigen, A9/A9 alpha chain-like [KO:K06751]
123794091  HLA class II histocompatibility antigen, DQ beta 1 chain-like [KO:K06752]
123794092  SLA class II histocompatibility antigen, DQ haplotype D alpha chain-like [KO:K06752]
123790938  HLA class II histocompatibility antigen, DO alpha chain [KO:K06752]
123790941  HLA class II histocompatibility antigen, DM alpha chain isoform X1 [KO:K06752]
123790942  HLA class II histocompatibility antigen, DM beta chain isoform X1 [KO:K06752]
123790948  HLA class II histocompatibility antigen, DO beta chain isoform X1 [KO:K06752]
123790949  DLA class II histocompatibility antigen, DR-1 beta chain-like [KO:K06752]
123790950  boLa class II histocompatibility antigen, DQB*0101 beta chain [KO:K06752]
123790951  SLA class II histocompatibility antigen, DQ haplotype D alpha chain-like [KO:K06752]
123790953  DLA class II histocompatibility antigen, DR-1 beta chain [KO:K06752]
123790954  HLA class II histocompatibility antigen, DR alpha chain [KO:K06752]
123791051  LOW QUALITY PROTEIN: HLA class II histocompatibility antigen, DP alpha 1 chain [KO:K06752]
123788339  RAB5A; ras-related protein Rab-5A [KO:K07887]
123787269  RAB5B; ras-related protein Rab-5B [KO:K07888]
123781866  RAB5C; ras-related protein Rab-5C [KO:K07889]
123780486  EEA1; early endosome antigen 1 isoform X1 [KO:K12478]
123787345  PIK3C3; phosphatidylinositol 3-kinase catalytic subunit type 3 isoform X1 [KO:K00914] [EC:2.7.1.137]
123802115  TFRC; transferrin receptor protein 1 isoform X1 [KO:K06503]
123777912  HGS; hepatocyte growth factor-regulated tyrosine kinase substrate isoform X1 [KO:K12182]
123784051  ATP6V1A; V-type proton ATPase catalytic subunit A [KO:K02145] [EC:7.1.2.2]
123786037  ATP6V1B1; V-type proton ATPase subunit B, kidney isoform [KO:K02147]
123789903  ATP6V1B2; V-type proton ATPase subunit B, brain isoform [KO:K02147]
123797816  ATP6V1C1; V-type proton ATPase subunit C 1 [KO:K02148]
123778579  ATP6V1C2; V-type proton ATPase subunit C 2 isoform X1 [KO:K02148]
123800686  ATP6V1D; V-type proton ATPase subunit D isoform X1 [KO:K02149]
123786105  ATP6V1E2; V-type proton ATPase subunit E 2 [KO:K02150]
123777998  ATP6V1E1; V-type proton ATPase subunit E 1 [KO:K02150]
123788975  ATP6V1F; V-type proton ATPase subunit F [KO:K02151]
123785778  ATP6V1G3; V-type proton ATPase subunit G 3 [KO:K02152]
123788034  ATP6V1G1; V-type proton ATPase subunit G 1 [KO:K02152]
123791019  ATP6V1G2; V-type proton ATPase subunit G 2 isoform X1 [KO:K02152]
123788601  ATP6V0E1; V-type proton ATPase subunit e 1 [KO:K02153]
123788804  ATP6V0E2; V-type proton ATPase subunit e 2 [KO:K02153]
123780006  ATP6V0A2; V-type proton ATPase 116 kDa subunit a2 [KO:K02154]
123781962  ATP6V0A1; V-type proton ATPase 116 kDa subunit a1 isoform X1 [KO:K02154]
123788899  ATP6V0A4; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
123778526  TCIRG1; V-type proton ATPase 116 kDa subunit a3 [KO:K02154]
123803430  ATP6V0D1; V-type proton ATPase subunit d 1 [KO:K02146]
123797913  ATP6V0D2; V-type proton ATPase subunit d 2 isoform X1 [KO:K02146]
123786733  ATP6V1H; V-type proton ATPase subunit H [KO:K02144]
123783792  ATP6V0C; V-type proton ATPase 16 kDa proteolipid subunit [KO:K02155]
123793793  ATP6V0B; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
123787813  ATP6AP1; V-type proton ATPase subunit S1 [KO:K03662]
123802067  RAB7A; ras-related protein Rab-7a [KO:K07897]
123785667  RAB7B; ras-related protein Rab-7b [KO:K07898]
123776936  rab-interacting lysosomal protein isoform X1 [KO:K13883]
123778196  DYNC1H1; cytoplasmic dynein 1 heavy chain 1 isoform X1 [KO:K10413]
123792507  DYNC2H1; cytoplasmic dynein 2 heavy chain 1 isoform X1 [KO:K10414]
123780770  DYNC1I2; cytoplasmic dynein 1 intermediate chain 2 isoform X1 [KO:K10415]
123789260  DYNC1I1; cytoplasmic dynein 1 intermediate chain 1 isoform X1 [KO:K10415]
123803458  DYNC1LI2; cytoplasmic dynein 1 light intermediate chain 2 [KO:K10416]
123778626  DYNC1LI1; cytoplasmic dynein 1 light intermediate chain 1 [KO:K10416]
123785735  tubulin alpha-8 chain [KO:K07374]
123794780  tubulin alpha-1A chain [KO:K07374]
123794781  TUBA1C; tubulin alpha-1C chain [KO:K07374]
123794782  tubulin alpha-1B chain [KO:K07374]
123802293  TUBAL3; tubulin alpha chain-like 3 [KO:K07374]
123795654  tubulin alpha-3 chain [KO:K07374]
123803591  tubulin alpha-3 chain [KO:K07374]
123778141  TUBA8; tubulin alpha-8 chain isoform X1 [KO:K07374]
123779439  tubulin alpha-4A chain [KO:K07374]
123801487  TUBB2A; tubulin beta-2A chain [KO:K07375]
123801555  TUBB2B; tubulin beta-2B chain [KO:K07375]
123794276  TUBB; tubulin beta chain [KO:K07375]
123803293  TUBB1; tubulin beta-1 chain [KO:K07375]
123803542  TUBB6; tubulin beta-6 chain [KO:K07375]
123796304  TUBB4B; tubulin beta-4B chain [KO:K07375]
123779017  TUBB4A; tubulin beta-4A chain [KO:K07375]
123776644  tubulin beta-3 chain [KO:K07375]
123803399  LAMP2; LOW QUALITY PROTEIN: lysosome-associated membrane glycoprotein 2 [KO:K06528]
123776720  LAMP1; lysosome-associated membrane glycoprotein 1 [KO:K06528]
123798257  PIKFYVE; 1-phosphatidylinositol 3-phosphate 5-kinase isoform X1 [KO:K00921] [EC:2.7.1.150]
123781691  M6PR; cation-dependent mannose-6-phosphate receptor [KO:K10089]
123778556  NOS1; nitric oxide synthase, brain [KO:K13240] [EC:1.14.13.39]
123777005  MPO; myeloperoxidase [KO:K10789] [EC:1.11.2.2]
123781427  procathepsin L [KO:K01365] [EC:3.4.22.15]
123781454  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123781455  procathepsin L-like [KO:K01365] [EC:3.4.22.15]
123787738  CTSS; cathepsin S isoform X1 [KO:K01368] [EC:3.4.22.27]
123802011  SEC61A1; protein transport protein Sec61 subunit alpha [KO:K10956]
123789981  SEC61A2; protein transport protein Sec61 subunit alpha isoform X1 [KO:K10956]
123781132  SEC61B; protein transport protein Sec61 subunit beta [KO:K09481]
123786269  SEC61G; protein transport protein Sec61 subunit gamma [KO:K07342]
123790943  TAP1; antigen peptide transporter 1 [KO:K05653] [EC:7.4.2.14]
123790946  TAP2; antigen peptide transporter 2 [KO:K05654] [EC:7.4.2.14]
123777718  CALR; calreticulin [KO:K08057]
123790487  CANX; calnexin [KO:K08054]
123779199  FCGR1A; high affinity immunoglobulin gamma Fc receptor I isoform X1 [KO:K06498]
123783523  FCGR2B; low affinity immunoglobulin gamma Fc region receptor II-b [KO:K12560]
123783673  low affinity immunoglobulin gamma Fc region receptor III-B-like isoform X1 [KO:K06463]
123781659  C1R; complement C1r subcomponent isoform X1 [KO:K01330] [EC:3.4.21.41]
123784682  ITGAM; integrin alpha-M isoform X1 [KO:K06461]
123779127  ITGB2; integrin beta-2 [KO:K06464]
123779001  C3; complement C3 [KO:K03990]
123786607  COLEC11; collectin-11 isoform X1 [KO:K10066]
123782099  COLEC12; collectin-12 [KO:K10062]
123783015  MBL2; mannose-binding protein C [KO:K03991]
123783130  pulmonary surfactant-associated protein A [KO:K10067]
123783125  SFTPD; pulmonary surfactant-associated protein D [KO:K10068]
123798116  ITGAV; integrin alpha-V isoform X1 [KO:K06487]
123803701  ITGA2; integrin alpha-2 [KO:K06481]
123794668  ITGA5; integrin alpha-5 [KO:K06484]
123784876  ITGB1; integrin beta-1 isoform X1 [KO:K05719]
123803040  ITGB3; integrin beta-3 [KO:K06493]
123802198  ITGB5; integrin beta-5 isoform X1 [KO:K06588]
123804137  THBS1; thrombospondin-1 [KO:K16857]
123779882  cartilage oligomeric matrix protein isoform X1 [KO:K04659]
123783393  THBS3; thrombospondin-3 isoform X1 [KO:K04659]
123791530  THBS4; thrombospondin-4 [KO:K04659]
123775437  THBS2; thrombospondin-2 [KO:K04659]
123793207  TLR2; toll-like receptor 2 [KO:K10159]
123804286  TLR6; toll-like receptor 6 [KO:K10169]
123788027  TLR4; toll-like receptor 4 [KO:K10160]
123790266  CD14; monocyte differentiation antigen CD14 isoform X1 [KO:K04391]
123785691  MRC1; macrophage mannose receptor 1 isoform X1 [KO:K06560]
123802980  MRC2; C-type mannose receptor 2 isoform X1 [KO:K06560]
123781502  PLA2R1; secretory phospholipase A2 receptor isoform X1 [KO:K06560]
123777585  CD209; CD209 antigen isoform X1 [KO:K06563]
123781585  CLEC7A; C-type lectin domain family 7 member A isoform X1 [KO:K10074]
123799402  MSR1; macrophage scavenger receptor types I and II isoform X1 [KO:K06558]
123796586  MARCO; macrophage receptor MARCO [KO:K13884]
123781624  OLR1; oxidized low-density lipoprotein receptor 1 isoform X1 [KO:K08763]
123780199  SCARB1; scavenger receptor class B member 1 isoform X1 [KO:K13885]
123789351  CD36; platelet glycoprotein 4 [KO:K06259]
123776589  LOW QUALITY PROTEIN: cytochrome b-245 light chain [KO:K08009]
123787655  LOW QUALITY PROTEIN: cytochrome b-245 heavy chain [KO:K21421] [EC:1.-.-.-]
123802589  RAC1; ras-related C3 botulinum toxin substrate 1 [KO:K04392]
123784723  NCF1; neutrophil cytosol factor 1 [KO:K08011]
123801424  NCF2; neutrophil cytosol factor 2 [KO:K08010]
123780782  NCF4; 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
uar04142  Lysosome
uar04144  Endocytosis
uar04610  Complement and coagulation cascades
uar04612  Antigen processing and presentation
uar04620  Toll-like receptor signaling pathway
uar04666  Fc gamma R-mediated phagocytosis
KO pathway
ko04145   
LinkDB

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