KEGG   PATHWAY: dre04145
Entry
dre04145                    Pathway                                
Name
Phagosome - Danio rerio (zebrafish)
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
dre04145  Phagosome
dre04145

Other DBs
GO: 0045335
Organism
Danio rerio (zebrafish) [GN:dre]
Gene
415163  vamp3; vesicle-associated membrane protein 3 [KO:K13505]
569124  stx12l; syntaxin-12-like [KO:K13813]
415141  stx12; syntaxin-12 [KO:K13813]
562669  stx7l; syntaxin-7 isoform X1 [KO:K08488]
57934  actb1; actin, cytoplasmic 1 [KO:K05692]
57935  actb2; actin, cytoplasmic 2 [KO:K05692]
100002113  coro1a; coronin-1A [KO:K13882]
554130  stx18; syntaxin-18 [KO:K08492]
114464  sec22ba; vesicle-trafficking protein SEC22b-A [KO:K08517]
327277  sec22bb; vesicle-trafficking protein SEC22b-B isoform 2 [KO:K08517]
64885  mhc1uea; major histocompatibility complex class I UEA precursor [KO:K06751]
393557  mhc1uxa2; major histocompatibility complex class I UXA2 precursor [KO:K06751]
791453  mhc1zba; major histocompatibility complex class I ZBA precursor [KO:K06751]
767703  mhc1uha; major histocompatibility complex class I UHA precursor [KO:K06751]
393377  mhc1uja; major histocompatibility complex class I UJA precursor [KO:K06751]
30783  mhc2a; major histocompatibility complex class II integral membrane alpha chain precursor [KO:K06752]
30763  mhc2dcb; major histocompatibility complex class II DCB precursor [KO:K06752]
30762  mhc2dab; major histocompatibility complex class II DAB precursor [KO:K06752]
368614  mhc2dga; uncharacterized protein LOC368614 precursor [KO:K06752]
368615  mhc2dgb; major histocompatibility complex class II DGB precursor [KO:K06752]
368816  si:busm1-194e12.8; uncharacterized protein LOC368816 precursor [KO:K06752]
368877  si:busm1-266f07.1; uncharacterized protein LOC368877 precursor [KO:K06752]
368878  mhc2daa; major histocompatibility complex class II DAA precursor [KO:K06752]
571282  H-2 class II histocompatibility antigen, A-U alpha chain [KO:K06752]
103911540  mhc2dhb; uncharacterized protein LOC103911540 precursor [KO:K06752]
64691  mhc2a1; major histocompatibility complex class II integral membrane alpha chain gene 1 precursor [KO:K06752]
795595  si:dkey-33b17.1; H-2 class II histocompatibility antigen, A-Q alpha chain [KO:K06752]
337737  rab5aa; RAB5A, member RAS oncogene family, a [KO:K07887]
393945  rab5ab; RAB5A, member RAS oncogene family, b [KO:K07887]
405821  rab5b; ras-related protein Rab-5B [KO:K07888]
386807  rab5c; ras-related protein Rab-5C [KO:K07889]
492695  eea1; early endosome antigen 1 [KO:K12478]
548346  pik3c3; phosphatidylinositol 3-kinase catalytic subunit type 3 [KO:K00914] [EC:2.7.1.137]
494477  tfr1a; transferrin receptor 1a [KO:K06503]
494478  tfr1b; transferrin receptor 1b [KO:K06503]
334175  hgs; hepatocyte growth factor-regulated tyrosine kinase substrate [KO:K12182]
394110  atp6v1aa; ATPase H+ transporting V1 subunit Aa [KO:K02145] [EC:7.1.2.2]
337583  atp6v1ab; V-type proton ATPase catalytic subunit A [KO:K02145] [EC:7.1.2.2]
359840  atp6v1b2; V-type proton ATPase subunit B, brain isoform [KO:K02147]
359839  atp6v1ba; V-type proton ATPase subunit B, kidney isoform [KO:K02147]
368907  atp6v1c1a; V-type proton ATPase subunit C 1-A [KO:K02148]
449655  atp6v1c1b; V-type proton ATPase subunit C 1-B [KO:K02148]
100538220  atp6v1c2; V-type proton ATPase subunit C 1-B-like [KO:K02148]
393935  atp6v1d; V-type proton ATPase subunit D [KO:K02149]
192335  atp6v1e1b; V-type proton ATPase subunit E 1 [KO:K02150]
108179059  atp6v1e1a; V-type proton ATPase subunit E 1a [KO:K02150]
436799  atp6v1f; V-type proton ATPase subunit F [KO:K02151]
335025  atp6v1g1; V-type proton ATPase subunit G 1 [KO:K02152]
553767  atpv0e2; ATPase H+ transporting V0 subunit e2 [KO:K02153]
450017  atp6v0e1; V-type proton ATPase subunit e 1 [KO:K02153]
324307  atp6v0a1a; V-type proton ATPase 116 kDa subunit a isoform 1a [KO:K02154]
553691  atp6v0a1b; V-type proton ATPase 116 kDa subunit a isoform 1b [KO:K02154]
406342  tcirg1b; T cell immune regulator 1, ATPase H+ transporting V0 subunit a3b [KO:K02154]
100003139  tcirg1a; V-type proton ATPase 116 kDa subunit a [KO:K02154]
561469  atp6v0a2a; V-type proton ATPase 116 kDa subunit a isoform X1 [KO:K02154]
561117  atp6v0a2b; V-type proton ATPase 116 kDa subunit a isoform 2b [KO:K02154]
100332691  si:ch73-173p19.2; V-type proton ATPase 116 kDa subunit a [KO:K02154]
322811  atp6v0d1; V-type proton ATPase subunit d 1 [KO:K02146]
286779  atp6v1h; V-type proton ATPase subunit H isoform 1 [KO:K02144]
192336  atp6v0ca; ATPase H+ transporting V0 subunit ca [KO:K02155]
325402  atp6v0cb; ATPase H+ transporting V0 subunit cb [KO:K02155]
321724  atp6v0b; V-type proton ATPase 21 kDa proteolipid subunit [KO:K03661]
195824  atp6ap1b; V-type proton ATPase subunit S1b [KO:K03662]
100004566  atp6ap1a; ATPase H+ transporting accessory protein 1a precursor [KO:K03662]
393902  rab7a; ras-related protein Rab-7a [KO:K07897]
431725  rab7b; ras-related protein Rab-7b [KO:K07897]
449549  zgc:100918; Ras-related protein rab7-like [KO:K07897]
494576  si:dkey-13a21.4; uncharacterized protein LOC494576 [KO:K07897]
100005026  rilp; RILP-like protein 1 isoform X1 [KO:K13883]
335110  dync1h1; cytoplasmic dynein 1 heavy chain 1 [KO:K10413]
100332402  dync2h1; dynein cytoplasmic 2 heavy chain 1 isoform 1 [KO:K10414]
561525  dync1i1; cytoplasmic dynein 1 intermediate chain 1 [KO:K10415]
767729  dync1i2a; dynein, cytoplasmic 1, intermediate chain 2a [KO:K10415]
561612  dync1i2b; cytoplasmic dynein 1 intermediate chain 2 isoform X1 [KO:K10415]
798868  cytoplasmic dynein 1 intermediate chain 1-like [KO:K10415]
556103  dync1li1; cytoplasmic dynein 1 light intermediate chain 1 [KO:K10416]
573266  dync1li2; cytoplasmic dynein 1 light intermediate chain 2 [KO:K10416]
373080  tuba1b; tubulin alpha-1B chain [KO:K07374]
393664  tuba8l2; tubulin, alpha 8 like 2 [KO:K07374]
327377  tuba4l; tubulin, alpha 4 like [KO:K07374]
337223  tuba5; tubulin alpha 5 [KO:K07374]
393154  tuba8l4; tubulin, alpha 8 like 4 [KO:K07374]
406303  tuba2; tubulin, alpha 2 [KO:K07374]
431777  tuba7l; tubulin, alpha 7 like [KO:K07374]
445164  tuba8l3; tubulin, alpha 8 like 3 [KO:K07374]
573122  tuba1c; tubulin alpha-1C chain [KO:K07374]
573216  tuba1a; tubulin alpha-1A chain [KO:K07374]
641561  zgc:123298; uncharacterized protein LOC641561 [KO:K07374]
792024  tuba8l5; tubulin, alpha 8 like 5 [KO:K07374]
795591  si:ch211-114n24.6; uncharacterized protein LOC795591 [KO:K07374]
386701  tubb5; tubulin beta-5 chain [KO:K07375]
335798  zgc:65894; uncharacterized protein LOC335798 [KO:K07375]
550458  tubb6; tubulin, beta 6 class V isoform 1 [KO:K07375]
554127  tubb2; tubulin beta-2A chain [KO:K07375]
558552  tubb1; tubulin beta-1 chain [KO:K07375]
641421  tubb2b; tubulin beta-2b chain [KO:K07375]
641565  zgc:123292; uncharacterized protein LOC641565 [KO:K07375]
767746  tubb4bl; uncharacterized protein LOC767746 [KO:K07375]
336681  tubb4b; tubulin beta-4b chain [KO:K07375]
406811  zgc:55461; beta-tubulin family protein [KO:K07375]
324985  lamp1a; lysosome-associated membrane glycoprotein 1a precursor [KO:K06528]
563328  lamp1b; lysosome-associated membrane glycoprotein 1b precursor [KO:K06528]
337690  pikfyve; 1-phosphatidylinositol 3-phosphate 5-kinase [KO:K00921] [EC:2.7.1.150]
406486  m6pr; cation-dependent mannose-6-phosphate receptor precursor [KO:K10089]
60658  nos1; nitric oxide synthase, brain [KO:K13240] [EC:1.14.13.39]
321453  ctsla; cathepsin La precursor [KO:K01365] [EC:3.4.22.15]
30443  ctslb; cathepsin Lb precursor [KO:K01365] [EC:3.4.22.15]
567046  cts12; cathepsin L1 [KO:K01365] [EC:3.4.22.15]
100537591  zgc:174154; uncharacterized protein LOC100537591 precursor [KO:K01365] [EC:3.4.22.15]
436641  ctsl.1; cathepsin L.1 precursor [KO:K01365] [EC:3.4.22.15]
563390  si:dkey-26g8.5; uncharacterized protein LOC563390 precursor [KO:K01365] [EC:3.4.22.15]
100001785  si:dkey-239j18.3; cathepsin L1-like [KO:K01365] [EC:3.4.22.15]
567623  zgc:174153; uncharacterized protein LOC567623 precursor [KO:K01365] [EC:3.4.22.15]
569326  zgc:174855; uncharacterized protein LOC569326 precursor [KO:K01365] [EC:3.4.22.15]
321853  si:dkey-239j18.2; uncharacterized protein LOC321853 precursor [KO:K01365] [EC:3.4.22.15]
554157  ctss2.1; cathepsin S, ortholog2, tandem duplicate 1 precursor [KO:K01368] [EC:3.4.22.27]
337572  ctss2.2; cathepsin S, ortholog 2, tandem duplicate 2 precursor [KO:K01368] [EC:3.4.22.27]
393398  ctss1; cathepsin S, ortholog 1 [KO:K01368] [EC:3.4.22.27]
192298  sec61a1a; protein transport protein Sec61 subunit alpha-like 1 [KO:K10956]
266796  sec61a1b; protein transport protein Sec61 subunit alpha-like 2 [KO:K10956]
791986  sec61b; protein transport protein Sec61 subunit beta [KO:K09481]
436772  sec61g; protein transport protein Sec61 subunit gamma [KO:K07342]
100333043  tap1; antigen peptide transporter 1 [KO:K05653] [EC:7.4.2.14]
368771  tap2a; antigen peptide transporter 2a [KO:K05654] [EC:7.4.2.14]
556826  si:dkey-57h18.2; antigen peptide transporter 2-like isoform X1 [KO:K05654] [EC:7.4.2.14]
30248  calr3a; calreticulin 3a precursor [KO:K08057]
321315  calr3b; calreticulin 3b precursor [KO:K08057]
325317  calr; calreticulin precursor [KO:K08057]
406757  canx; calnexin precursor [KO:K08054]
100005358  si:ch211-274f20.2; calnexin-like [KO:K08054]
100535958  ighv4-5; uncharacterized protein ighv4-5 [KO:K06856]
101882585  si:dkey-32n7.4; integrin alpha-M-like [KO:K06461]
557797  itgb2; integrin beta-2 [KO:K06464]
30491  c3a.2; complement C3a.2 precursor [KO:K03990]
565074  c3a.3; complement C3a.3 precursor [KO:K03990]
321046  c3a.1; complement C3a.1 precursor [KO:K03990]
494039  c3a.6; complement component c3a, duplicate 6 precursor [KO:K03990]
492459  colec11; collectin-11 precursor [KO:K10066]
558942  colec12; collectin-12 [KO:K10062]
566971  hbl2; pulmonary surfactant-associated protein D-like [KO:K03991]
100137128  hbl4; hexose-binding lectin 4 precursor [KO:K03991]
100007982  hbl1; mannose-binding protein C isoform X2 [KO:K03991]
100151255  itgav; integrin alpha-V precursor [KO:K06487]
100536533  itga2.2; integrin alpha-2-like isoform X1 [KO:K06481]
386787  itga5; integrin alpha-5 precursor [KO:K06484]
570216  itgb1b; integrin beta-1b precursor [KO:K05719]
556734  itgb1a; integrin beta-1a precursor [KO:K05719]
100001836  itgb3b; integrin beta-3b precursor [KO:K06493]
564266  itgb3a; integrin beta-3a precursor [KO:K06493]
563556  itgb5; integrin beta-5 [KO:K06588]
561901  thbs1b; thrombospondin-1 isoform X1 [KO:K16857]
100332237  thbs1a; thrombospondin-1 [KO:K16857]
252849  thbs3a; thrombospondin-3a precursor [KO:K04659]
252850  thbs4b; thrombospondin-4-B precursor [KO:K04659]
100535241  thbs2a; thrombospondin-2 [KO:K04659]
100318854  comp; cartilage oligomeric matrix protein isoform 1 precursor [KO:K04659]
563429  thbs4a; thrombospondin-4a precursor [KO:K04659]
566325  thbs2b; thrombospondin-2 [KO:K04659]
571317  thbs3b; thrombospondin-3b precursor [KO:K04659]
403125  tlr2; toll-like receptor 2 precursor [KO:K10159]
403133  tlr18; toll-like receptor 18 precursor [KO:K10159]
403131  tlr4ba; toll-like receptor 4b, duplicate a [KO:K10160]
403132  tlr4bb; toll-like receptor 4b, duplicate b precursor [KO:K10160]
795671  tlr4al; toll-like receptor 4a, like precursor [KO:K10160]
559502  mrc1b; macrophage mannose receptor 1b precursor [KO:K06560]
100004793  mrc2; C-type mannose receptor 2 [KO:K06560]
100286774  mrc1a; macrophage mannose receptor 1 [KO:K06560]
100537272  macrophage mannose receptor 1-like [KO:K06560]
100538038  pla2r1; secretory phospholipase A2 receptor [KO:K06560]
571584  marco; macrophage receptor MARCO isoform X1 [KO:K13884]
387260  scarb1; scavenger receptor class B member 1 [KO:K13885]
436636  cd36; platelet glycoprotein 4 [KO:K06259]
393551  cyba; cytochrome b-245 light chain [KO:K08009]
393386  cybb; cytochrome b-245 heavy chain [KO:K21421] [EC:1.-.-.-]
327204  rac1a; ras-related C3 botulinum toxin substrate 1 [KO:K04392]
792699  rac1l; ras-related C3 botulinum toxin substrate 1 [KO:K04392]
562838  rac1b; ras-related C3 botulinum toxin substrate 1b [KO:K04392]
378966  ncf1; neutrophil cytosol factor 1 [KO:K08011]
562473  ncf2; neutrophil cytosol factor 2 [KO:K08010]
403014  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
dre04142  Lysosome
dre04144  Endocytosis
dre04620  Toll-like receptor signaling pathway
KO pathway
ko04145   

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Genome (1)   
   KEGG GENOME (1)   
Gene (180)   
   KEGG GENES (180)   
All databases (181)   

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