Kegg Pathway: Antigen processing and presentation

KEGG ID: 04612

Reference Diagram

KEGG Diagram for Antigen processing and presentation

Rat

There are 81 IPI Records from this pathway found in Rattus norvegicus.

Location of Antigen processing and presentation proteins on Rat Genome

IPI Record Position
1: B2m 3:108927926-108932942
2: C2ta 10:5087172-5133418
3: Calr 19:24964798-24969668
4: Canx 10:35854051-35869404
5: Cd4 4:160988512-161014038
6: Cd74 18:56756511-56765713
7: Cd8a 4:104589928-104594159
8: Cd8b 4:104536493-104549185
9: Creb1 9:63170785-63234727
10: Ctsb 15:42402829-42423703
11: Ctsl 17:6288013-6294174
12: Ctss 2:190422634-190466567
13: H2-T18 20:2750921-2758358
14: Hla-dma 20:4844014-4846806
15: Hla-dmb 20:4830090-4836553
16: Hspa5 3:13783659-13788002
17: Hspca 6:135414141-135418506
18: Ifi30 16:19181236-19185449
19: Ifna1 5:108011739-108012317
20: Ifna11_predicted 5:108150128-108150703
21: Ifna2_predicted 5:108085633-108118114
22: Kir3dl1 1:69068893-69110751
23: Klrc1 4:166976056-166986568
24: Klrc2 4:166956614-166967757
25: Klrc3 4:166941802-166946249
26: Klrd1 :-
27: Lgmn 6:126668905-126707246
28: LOC499617 2:144036653-144040835
29: Lta 20:3657842-3659848
30: Nfya 9:7970040-7994375
31: Nfyb 7:23197466-23203907
32: Nfyc 5:141349685-141407900
33: Pdia3 3:108216369-108240138
34: Psme1 15:33712892-33715771
35: Psme2 15:33722370-33726669
36: Rfx5_predicted 2:189856029-189860951
37: Rfxank 16:19766065-19772149
38: RGD1559932_predicted :-
39: RGD1565911_predicted :-
40: RT1-149 20:2812209-2888003
41: RT1-A1 20:5056763-5060280
42: RT1-A2 20:4998645-5025341
43: RT1-A3 :-
44: RT1-Aw2 :-
45: RT1-Ba 20:4697999-4702565
46: RT1-Bb 20:4730559-4737433
47: RT1-CE1 20:3509594-3598018
48: RT1-CE10 20:3468599-3472202
49: RT1-CE11 :-
50: RT1-CE12 :-
51: RT1-CE13 :-
52: RT1-CE14 :-
53: RT1-CE15 :-
54: RT1-CE16 :-
55: RT1-CE2 20:3576838-3579770
56: RT1-CE3 20:3552265-3555613
57: RT1-CE4 20:3536582-3539603
58: RT1-CE5 20:3510167-3513732
59: RT1-CE7 20:3410094-3429824
60: RT1-Cl :-
61: RT1-Da 20:4636344-4641280
62: RT1-Db1 20:4671513-4681365
63: RT1-DOa 20:4890410-4894044
64: RT1-DOb 20:4743651-4759648
65: RT1-Ha 20:4902015-4907717
66: RT1-Ke4 20:4961318-4964651
67: RT1-M1-2 20:1998510-2000712
68: RT1-M1-4 20:1978459-1980679
69: RT1-M10-1 20:2074830-2076950
70: RT1-M2 :-
71: RT1-M6-2 20:1414170-1416692
72: RT1-N1 :-
73: RT1-N3 20:2806577-2810443
74: RT1-O 20:2799232-2801636
75: RT1-S2 20:2794349-2795770
76: RT1-S3 :-
77: RT1-T24-1 20:2907237-2922971
78: RT1.M4_predicted 20:1643837-1647582
79: Tap1 20:4790363-4800997
80: Tap2 20:4770446-4784488
81: Tapbp :-

Mouse

There are 81 IPI Records from this pathway found in Mus musculus.

Location of Antigen processing and presentation proteins on Mouse Genome

IPI Record Position
1: B2m 2:121839127-121844524
2: Calr 8:87731955-87736972
3: Canx 11:50137886-50169014
4: Cd4 6:124830325-124853807
5: Cd74 18:60929217-60948821
6: Cd8a 6:71303062-71307116
7: Cd8b1 6:71252366-71263639
8: Ciita 16:10393637-10441141
9: Creb1 1:64467080-64538826
10: Ctsb 14:62076572-62097243
11: Ctsl 13:64377945-64385037
12: Ctss 3:95612190-95641804
13: H2-Aa 17:33891095-33896139
14: H2-Bl 17:35688101-35692512
15: H2-D1 :-
16: H2-DMa 17:33746125-33748991
17: H2-DMb1 :-
18: H2-DMb2 17:33756075-33761497
19: H2-Ea 17:33950514-33952226
20: H2-Eb1 17:33913591-33923315
21: H2-K1 17:33606474-33610711
22: H2-M1 17:36278061-36280250
23: H2-M10.1 17:35930911-35934203
24: H2-M10.2 17:35892334-35894474
25: H2-M10.3 17:35973057-35976470
26: H2-M10.4 17:36068217-36070382
27: H2-M10.5 17:36380963-36384290
28: H2-M10.6 17:36420224-36423617
29: H2-M11 17:36155128-36157307
30: H2-M2 17:37088904-37091582
31: H2-M3 17:36878315-36880813
32: H2-M9 17:36248478-36250697
33: H2-Oa 17:33702901-33705273
34: H2-Ob 17:33850627-33862896
35: H2-Q1 17:34987670-34991829
36: H2-Q10 17:35078158-35082606
37: H2-Q2 17:34871167-34953775
38: H2-Q7 17:35047274-35051696
39: H2-Q8 17:35002152-35005858
40: H2-T10 :-
41: H2-T22 17:35646462-35729497
42: H2-T23 17:35638029-35640754
43: H2-T24 17:35614707-35628564
44: H2-T3 17:35793624-35798340
45: H2-T9 :-
46: Hsp90aa1 12:111139347-111143487
47: Hsp90ab1 17:45031596-45035492
48: Hspa5 2:34594099-34598538
49: Ifi30 8:73691763-73695652
50: Ifna1 4:88321318-88321887
51: Ifna11 4:88291124-88292606
52: Ifna13 4:88115047-88115616
53: Ifna2 4:88154438-88155010
54: Ifna4 4:88313092-88313652
55: Ifna5 4:88306756-88307325
56: Ifna6 :-
57: Ifna7 4:88287459-88288031
58: Ifna9 4:88063037-88074607
59: Ifnab 4:88161886-88162458
60: Klrc1 6:129631714-129644629
61: Klrc2 6:129615230-129626382
62: Klrc3 6:129604753-129609021
63: Klrd1 6:129559176-129564465
64: Lta 17:34811218-34813403
65: Ms10t 17:35032930-35038102
66: Nfya 17:47852463-47875332
67: Nfyb 10:82180214-82186594
68: Nfyc 4:120255074-120323331
69: Pdia3 2:121105386-121129419
70: Psme1 14:54532646-54535608
71: Psme2 :-
72: Q4KN85_MOUSE :-
73: Q80SS5_MOUSE 4:88063037-88074607
74: Q810G3_MOUSE 4:88028904-88043029
75: Rfx5 3:95039574-95046752
76: Rfxank 8:73059795-73068186
77: Rfxap 3:54891052-54895720
78: Rmcs5 17:33871432-33877605
79: Tap1 17:33798022-33807437
80: Tap2 17:33814426-33826594
81: Tapbp 17:33529932-33537169

Human

There are 81 IPI Records from this pathway found in Homo sapiens.

Location of Antigen processing and presentation proteins on Human Genome

IPI Record Position
1: B2M 15:42790977-42797649
2: CALR 19:12910392-12916274
3: CANX 5:179058536-179091243
4: CD4 12:6769005-6800233
5: CD74 5:149761426-149772685
6: CD8A 2:86865245-86871578
7: CD8B 2:86895973-86942549
8: CIITA 16:10867648-10926340
9: CREB1 2:208102931-208171806
10: CTSB 8:11737442-11763147
11: CTSL1 9:89530254-89536127
12: CTSS 1:148969296-149005057
13: HLA-DMA 6:32987979-32992453
14: HLA-DMB 6:32973998-32980399
15: HLA-DOA 6:33043508-33048938
16: HLA-DOB 6:32888518-32892803
17: HLA-DPA1 6:33104701-33113285
18: HLA-DPB1 6:33151694-33162956
19: HLA-DQA1 6:32713112-32719345
20: HLA-DQA2 6:32817141-32823171
21: HLA-DQB1 6:32698557-32705974
22: HLA-DQB2 6:32831445-32839446
23: HLA-DRA 6:32507971-32513151
24: HLA-E 6:30565198-30569950
25: HLA-F 6:29832424-29836307
26: HLA-G 6:30111128-30114493
27: HSP90AA1 14:101617139-101675776
28: HSP90AB1 6:44322802-44329598
29: HSPA5 9:127036953-127043430
30: IFI30 19:18145579-18149927
31: IFNA10 9:21196180-21197142
32: IFNA13 9:21430440-21431315
33: IFNA14 9:21191234-21229990
34: IFNA16 9:21206372-21207310
35: IFNA17 9:21217242-21218221
36: IFNA2 9:21374253-21375387
37: IFNA21 9:21155636-21156659
38: IFNA4 9:21176693-21177670
39: IFNA5 9:21294325-21295311
40: IFNA6 9:21339834-21341377
41: IFNA7 9:21191234-21229990
42: IFNA8 9:21399146-21400184
43: KIR2DL1 :-
44: KIR2DL2 :-
45: KIR2DL3 :-
46: KIR2DL4 19:60006892-60017783
47: KIR2DL5A :-
48: KIR2DS1 :-
49: KIR2DS2 :-
50: KIR2DS3 :-
51: KIR2DS4 :-
52: KIR2DS5 :-
53: KIR3DL1 19:60019741-60034044
54: KIR3DL2 19:59927796-60070474
55: KIR3DL3 19:59927796-60070474
56: KLRC1 12:10489909-10498482
57: KLRC2 12:10474477-10479859
58: KLRC3 12:10456188-10464461
59: KLRC4 12:10416857-10454012
60: KLRD1 12:10351816-10359983
61: LGMN 14:92239910-92284765
62: LTA 6:31648042-31650080
63: NFYA 6:41148662-41175693
64: NFYB 12:103034988-103056170
65: NFYC 1:40929829-41009864
66: PDIA3 15:41825882-41851035
67: PSME1 14:23661207-23678015
68: PSME2 14:23682449-23686270
69: RFX5 1:149579740-149586457
70: RFXANK 19:19164008-19173678
71: RFXAP 13:36291339-36301740
72: TAP1 6:32882385-32891153
73: TAP2 6:32859010-32875945
74: TAPBP 6:33375449-33390142

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Recent Literature

Nurse cell of Trichinella spp. as a model of long-term cell cycle arrest.

Cell Cycle. 2008 May 11; 7(14):
Dabrowska M, Skoneczny M, Zielinski Z, Rode W

Nurse cell (NC), formed from skeletal muscle cells upon infection with parasitic nematode trichina, presents a rare system of long-term suspension in the cell cycle. Signaling pathways and general biological functions of Trichinella spiralis NC, inferred from network analysis of competitive expression microarray data (NC vs. C2C12 myoblasts and myotubes), performed in Ingenuity Pathways Analysis (IPA) software and confirmed by Real-Time PCR, are presented. Assuming 4N DNA content in NC nuclei, its cell cycle arrest is identified herein as a hypermitogenic of G(1)-like type, accompanied by induction of senescence, underpinned by increased expression of p15, p16 and p57 cell cycle inhibitors, as well as overexpression of senescence-associated, beta-galactosidase and numerous secretory factors. Growth factor signaling, with predominant role of EGF, cytokine signaling and G-protein-coupled receptor signaling, are suggested as dominant NC signal transduction pathways. Fos, FosB, STAT6, CREBL2, ID4 and retinoic acid dependent nuclear receptors appear to be the main factors determining NC specific gene transcription. Antigen presentation, complement signaling and beta-amyloid processing pathways are also identified as operating in NC. In general, NC pathology is found to pertain to cancer, as well as other, including immunological and neurological, disorders.

Role of virus-induced neuropeptides in the brain in the pathogenesis of rabies.

Dev Biol (Basel). 2008; 131: 73-81
Weihe E, Bette M, Preuss MA, Faber M, Schäfer MK, Rehnelt J, Schnell MJ, Dietzschold B

Rabies virus (RABV) infection is characterized by the rapid neuronal spread of RABV into the CNS before a protective immune response is raised. Therefore, a typical feature of RABV infection is the paucity of inflammatory reactions in the brain. Here we examined whether the induction of immunosuppressive neuropeptides, in particular CGRP, may contribute to the ability of RABV to evade immune responses. RABV infection of mice caused a strong induction of calcitonin gene-related peptide (CGRP) in neurons and fibres in the neocortex as well as in the dentate gyrus and CA1 region of the hippocampus although RABV did not infect neurons in which CGRP expression was upregulated. Neuropeptide Y (NPY) or vasoactive intestinal peptide (VIP) expressing neurons also were not infected by RABV. In contrast, somatostatin neurons were infected by RABV. There was evidence for an RABV-induced increase of VIP and somatostatin but not of NPY. To test how CGRP expression is related to TNFalpha-induced enhancement of CNS innate and adaptive immunity during RABV infection, we used recombinant RABVs that contained either an active (SPBN-TNFalpha(+)) or an inactive (SPBN-TNFalpha(-)) TNFalpha gene. As compared to SPBN-TNFalpha(-), infection with SPBN-TNFalpha(+) attenuated the induction of CGRP but simultaneously enhanced induction of the invariant chain of MHC II, microglial activation and T cell infiltration. In conclusion, distinct neuropeptidergic neurons in the brain are remarkably spared from RABV infection suggesting a pivotal role of neuropeptides during CNS virus infection. Given the inhibitory effect of CGRP on Antigen presentation, we propose that the strong RABV-induced upregulation of CGRP in the brain may contribute to the mechanism by which RABV escapes immune detection. Targeting the expression of neuropeptides, in particular CGRP, that are induced during RABV infection may open a new avenue for therapeutic intervention in human rabies.

Paresis in an Asian small clawed otter (Aonyx cinereus) associated with vertebral and ischial osteolysis caused by a malignant lymphangiosarcoma.

J Zoo Wildl Med. 2008 Jun; 39(2): 236-43
Swenson J, Carpenter JW, Janardhan KS, Ketz-Riley C, Brinkman E

A 10-yr-old male intact Asian small clawed otter (Aonyx cinerus) was presumptively diagnosed by histopathology and immunohistochemistry with lymphangiosarcoma after bony destruction of the ischium and spinal column from local tumor invasion had caused progressive signs of hind limb lameness and paresis/paralysis, which led to humane euthanasia. At necropsy, the primary tumor was identified as a flocculent mass present under the caudal lumbar vertebrae. Multiple nerves were seen to run from the spinal cord into the wall of the mass. This mass had locally invaded the surrounding muscle, vertebral column, and spinal cord, which led to the clinical signs noted at presentation. Bony destruction was severe with almost complete obliteration of the right ischium and osteolysis of L6, exposing the spinal cord beneath. The tumor had metastasized to at least two different sites within the spleen. The abdominal tumor was confirmed to be of endothelial origin by the use of immunohistochemical staining for factor VIII-related Antigen and was confirmed as lymphatic origin versus vascular origin because of the lack of red blood cells within the vessels. The length of time from initial presentation with hind limb lameness to euthanasia because of hind limb paralysis was 4 mo. This is the first report of lymphangiosarcoma, an uncommon malignant neoplasm of lymphatic origin, in a mustelid and the first report of neoplastic disease in an Asian small clawed otter. In addition, the presentation of hind limb paresis associated with bony lysis because of local tumor invasion has not been previously reported with lymphangiosarcoma in humans, domestic animals, or nondomestic animals.

Human dendritic cell activities are modulated by the omega-3 fatty acid, docosahexaenoic acid, mainly through PPAR{gamma}:RXR heterodimers--comparison with other polyunsaturated fatty acids.

J Leukoc Biol. 2008 Jul 16;
Zapata-Gonzalez F, Rueda F, Petriz J, Domingo P, Villarroya F, Diaz-Delfin J, de Madariaga MA, Domingo JC

There is accumulating evidence that omega-3 fatty acids may modulate immune responses. When monocytes were differentiated to dendritic cells (DCs) in the presence of docosahexaenoic acid (DHA), the expression of costimulatory and Antigen presentation markers was altered in a concentration-dependent way, positively or negatively, depending on the markers tested and the maturation stage of the DCs. Changes induced by eicosapentaenoic acid and linoleic acid were similar but less intense than those of DHA, whereas oleic acid had almost no effect. DHA-treated, mature DCs showed inhibition of IL-6 expression and IL-10 and IL-12 secretion, and their lymphoproliferative stimulation capacity was impaired. The phenotypic alterations of DCs induced by DHA were similar to those already reported for Rosiglitazone (Rosi), a peroxisome proliferator-activated receptor gamma (PPARgamma) activator, and the retinoid 9-cis-retinoic acid (9cRA), a retinoid X receptor (RXR) activator. Moreover, DHA induced the expression of PPARgamma target genes pyruvate dehydrogenase kinase-4 and aP-2 in immature DCs. The combination of DHA with Rosi or 9cRA produced additive effects. Furthermore, when DCs were cultured in the presence of a specific PPARgamma inhibitor, all of the changes induced by DHA were blocked. Together, these results strongly suggest that the PPARgamma:RXR heterodimer is the pathway component activated by DHA to induce its immunomodulatory effect on DCs.

Extensive and bidirectional transfer of major histocompatibility complex class II molecules between donor and recipient cells in vivo following solid organ transplantation.

FASEB J. 2008 Jul 16;
Brown K, Sacks SH, Wong W

Intercellular transfer of surface molecules has been demonstrated in vitro, or in vivo under artificial situations. Transplantation is a unique clinical situation in which foreign major histocompatibility complex (MHC) molecules are deliberately introduced. This provides a model to study intercellular MHC transfer because donor MHC molecules can easily be tracked. Here we describe the bidirectional transfer of MHC class II molecules between donor and recipient cells after transplantation of vascularized kidney and cardiac allografts in mice. Cells that are positive for both donor and recipient MHC class II accounted for up to 30% of the donor MHC class II(+) population, suggesting that they play a significant role in the Antigen presentation process. The majority of these cells were dendritic cells, but macrophages and B cells were also able to acquire foreign MHC molecules. Most double-positive cells were also positive for costimulatory molecules, indicating a capability to elicit a T-cell response. This transfer of MHC molecules between donor and recipient cells provides a link between the direct and indirect pathways of alloAntigen presentation and suggests that MHC transfer is also likely to occur under normal physiological conditions, which has implications in the fields of infection, vaccination, and tumor immunology.-Brown, K., Sacks, S. H., Wong, W. Extensive and bidirectional transfer of major histocompatibility complex class II molecules between donor and recipient cells in vivo following solid organ transplantation.

Mechanisms of action of probiotics: Recent advances.

Inflamm Bowel Dis. 2008 Jul 14;
Ng SC, Hart AL, Kamm MA, Stagg AJ, Knight SC

The intestinal microbiota plays a fundamental role in maintaining immune homeostasis. In controlled clinical trials probiotic bacteria have demonstrated a benefit in treating gastrointestinal diseases, including infectious diarrhea in children, recurrent Clostridium difficile-induced infection, and some inflammatory bowel diseases. This evidence has led to the proof of principl