Programmed cell death in host-symbiont associations, viewed through the Gene Ontology

BMC Microbiology

Volumn 9, Issue SUPPL. 1, 2009, Pages

  Chibucos, Marcus C ^a,b   Collmer, Candace W ^c,d   Torto Alalibo, Trudy ^a   Gwinn Giglio, Michelle ^b   Lindeberg, Magdalen ^d   Li, Donghui ^e   Tyler, Brett M ^a  

^a VIRGINIA BIOINFORMATICS INSTITUTE   (United States)

^b UNIVERSITY OF MARYLAND SCHOOL OF MEDICINE   (United States)

^c WELLS COLLEGE   (United States)

^d Cornell University ^*  (United States)

^e GEOPHYSICAL LABORATORY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

APOPTOSIS; BACTERIUM; FUNGUS; GENETICS; HOST PATHOGEN INTERACTION; LINGUISTICS; METABOLISM; MICROBIOLOGY; NOMENCLATURE; OOMYCETES; PATHOGENICITY; PLANT DISEASE; REVIEW; SYMBIOSIS; VIRUS;

APOPTOSIS; BACTERIA; FUNGI; HOST-PATHOGEN INTERACTIONS; OOMYCETES; PLANT DISEASES; SYMBIOSIS; TERMINOLOGY AS TOPIC; VIRUSES; VOCABULARY, CONTROLLED;

EID: 60749137662     PISSN: 14712180     EISSN: 14712180     Source Type: Journal    
DOI: 10.1186/1471-2180-9-S1-S5     Document Type: Review

References (81)

1. AmiGO! Your friend in the Gene Ontology. http://amigo.geneontology.org
2. Infection structures of biotrophic and hemibiotrophic fungal plant pathogens. SE Perfect JR Green, Molecular Plant Pathology 2001 2 2 101 108
3. Common themes in nutrient acquisition by plant symbiotic microbes, described by The Gene Ontology. MC Chibucos BM Tyler, BMC Microbiology 2009 9 Suppl 1 S6
4. Controlled cell death, plant survival and development. E Lam, Nat Rev Mol Cell Biol. 2004 5 305 315 15071555
5. 2 necessary for lignification in differentiating xylem vessels. AR Barcelo, Planta 2005 220 5 747 756 15747145
6. Inducible cell death in plant immunity. D Hofius DI Tsitsigiannis JDG Jones J Mundy, Semin Cancer Biol. 2007 17 2 166 187 17218111
7. Development of mucilage cells of Araucaria angustifolia (Araucariaceae). AA Mastroberti JEdA Mariath, Protoplasma 2008 232 3-4 233 245 18239849
8. Programmed cell death in animal development. MD Jacobson M Weil MC Raff, Cell. 1997 88 3 347 354 9039261
9. Programmed cell death in plant-pathogen interactions. JT Greenberg, Annu Rev Plant Physiol Plant Mol Biol. 1997 48 525 545 15012273
10. Cell death: history and future. Z Zakeri RA Lockshin, Adv Exp Med Biol. 2008 615 1 11 18437888
11. The role and regulation of programmed cell death in plant-pathogen interactions. JT Greenberg N Yao, Cell Microbiol. 2004 6 3 201 211 14764104
12. The Plant-Associated Microbe Gene Ontology (PAMGO) Consortium: Community development of new Gene Ontology terms describing biological processes involved in microbe-host interactions. TA Torto-Alalibo CW Collmer M Gwinn-Giglio, BMC Microbiology 2009 9 Suppl 1 S1
13. An Introduction to the Gene Ontology. http://www.geneontology.org/GO.doc. shtml
14. Autophagy and plant innate immunity. M Seay S Patel SP Dinesh-Kumar, Cell Microbiol. 2006 8 6 899 906 16681833
15. Apoptosis, pyroptosis, and necrosis: mechanistic description of dead and dying eukaryotic cells. SL Fink BT Cookson, Infect Immun. 2005 73 4 1907 1916 15784530
16. Oxford Dictionary of Biochemistry and Molecular Biology. A Smith (ed), New York: Oxford University Press 2004
17. Induction of two different modes of cell death, apoptosis and necrosis, in rat liver after a single dose of thioacetamide. GM Ledda-Columbano P Coni M Curto L Giacomini G Faa S Oliverio M Piacentini A Columbano, Am J Pathol. 1991 139 5 1099 1109 1683163
18. Elicitors, effectors, and R genes: The new paradigm and a lifetime supply of questions. AF Bent D Mackey, Annu Rev Phytopathol. 2007 45 399 436 17506648
19. Roles of reactive oxygen species in interactions between plants and pathogens. NP Shetty HJL Jorgensen JD Jensen DB Collinge HS Shetty, European Journal of Plant Pathology 2008 121 3 267 280
20. Death don't have no mercy and neither does calcium: Arabidopsis CYCLIC NUCLEOTIDE GATED CHANNEL2 and innate immunity. R Ali W Ma F Lemtiri-Chlieh D Tsaltas Q Leng Sv Bodman GA Berkowitz, Plant Cell. 2007 19 1081 1095 17384171
21. Programmed cell death: a way of life for plants. JT Greenberg, Proc Natl Acad Sci USA 1996 93 12094 12097 8901538
22. Resistance to oomycetes: a general role for the hypersensitive response? S Kamoun E Huitema VGAA Vleeshouwers, Trends Plant Sci. 1999 4 5 196 200 10322560
23. The hypersensitive response and the induction of cell death in plants. J-B Morel JL Dangl, Cell Death Differ. 1997 4 671 683 16465279
24. The hypersensitive response; the centenary is upon us but how much do we know? LAJ Mur P Kenton AJ Lloyd H Ougham E Prats, J Exp Bot. 2008 59 3 501 520 18079135
25. Programmed cell death, mitochondria and the plant hypersensitive response. E Lam N Kato M Lawton, Nature. 2001 411 848 853 11459068
26. Beyond apoptosis: nonapoptotic cell death in physiology and disease. CA Hetz V Torres AFG Quest, Biochem Cell Biol. 2005 83 579 588 16234846
27. Autophagy in the control of programmed cell death. S Patel J Caplan SP Dinesh-Kumar, Curr Opin Plant Biol. 2006 9 391 396 16713731
28. Programmed cell death in plants: distinguishing between different modes. TJ Reape EM Molony PF McCabe, J Exp Bot. 2008 59 3 435 444 18256053
29. Cell death by necrosis: towards a molecular definition. P Golstein G Kroemer, Trends Biochem Sci. 2006 32 1 37 43 17141506
30. Mitochondrial dynamics and apoptosis. D-F Suen KL Norris RJ Youle, Genes & Development 2008 22 1577 1590 18559474
31. NPP1, a Phytophthora-associated trigger of plant defense in parsley and Arabidopsis. G Fellbrich A Romanski A Varet B Blume F Brunner S Engelhardt G Felix B Kemmerling M Krzymowska T Nürnberger, Plant J. 2002 32 375 390 12410815
32. An Arabidopsis callose synthase, GSL5, is required for wound and papillary callose formation. AK Jacobs V Lipka RA Burton R Panstruga N Strizhov P Schulze-Lefert GB Fincher, Plant Cell. 2003 15 11 2503 2513 14555698
33. Expression of a Phytophthora sojae necrosis-inducing protein occurs during transition from biotrophy to necrotrophy. D Qutob S Kamoun M Gijzen, Plant J. 2002 32 361 373 12410814
34. Guide to GO Evidence Codes. http://www.geneontology.org/GO.evidence.shtml
35. Resistance of Nicotiana benthamiana to Phytophthora infestans is mediated by the recognition of the elicitor protein INF1. S Kamoun P van West VG Vleeshouwers KE de Groot F Govers, Plant Cell. 1998 10 9 1413 1426 9724689
36. Common and contrasting themes in effectors from bacteria, fungi, oomycetes and nematodes. TA Torto-Alalibo CW Collmer M Lindeberg D Bird A Collmer BM Tyler, BMC Microbiology 2009 9 Suppl 1 S3
37. Gene Ontology annotation highlights shared and divergent pathogenic strategies of type III effector proteins deployed by the plant pathogen Pseudomonas syringae pv tomato DC3000 and animal pathogenic Escherichia coli strains. M Lindeberg BS Biehl JD Glasner NT Perna A Collmer CW Collmer, BMC Microbiology 2009 9 Suppl 1 S4
38. Prospects for understanding avirulence gene function. FF White B Yang LB Johnson, Curr Opin Plant Biol. 2000 3 4 291 298 10873850
39. Viruses and apoptosis. A Roulston RC Marcellus PE Branton, Annu Rev Microbiol. 1999 53 577 628 10547702
40. The modulation of host cell apoptosis by intracellular bacterial pathogens. L-Y Gao YA Kwaik, Trends Microbiol. 2000 8 7 306 313 10878765
41. Induction of apoptosis by Legionella pneumophila in mammalian cells requires the mitochondrial pathway for caspase activation. SF Fischer J Vier C Müller-Thomas G Häcker, Microbes Infect. 2006 8 662 669 16476563
42. Pyroptosis and host cell death responses during Salmonella infection. SL Fink BT Cookson, Cell Microbiol. 2007 9 11 2562 2570 17714514
43. A correlation between phagocytosis and apoptosis in THP-1 cells infected with prevalent strains of Mycobacterium tuberculosis. P Rajavelu SD Das, Microbiol Immunol. 2007 51 2 201 210 17310088
44. Evolution of the type III secretion system and its effectors in plant-microbe interactions. HC McCann DS Guttman, New Phytol. 2008 177 33 47 18078471
45. Protein secretion systems in bacterial-host associations, and their description in the Gene Ontology. T-T Tseng BM Tyler JC Setubal, BMC Microbiology 2009 9 Suppl 1 S2
46. Pseudomonas type III effector AvrPtoB induces plant disease susceptibility by inhibition of host programmed cell death. RB Abramovitch Y-J Kim S Chen MB Dickman GB Martin, EMBO J. 2003 22 1 60 69 12505984
47. Identification of a pathogenicity island, which contains genes for virulence and avirulence, on a large native plasmid in the bean pathogen Pseudomonas syringae pathovar phaseolicola. RW Jackson E Athanassopoulos G Tsiamis JW Mansfield A Sesma DL Arnold MJ Gibbon J Murillo JD Taylor A Vivian, Proc Natl Acad Sci U S A. 1999 96 19 10875 10880 10485919
48. Identification of Pseudomonas syringae type III effectors that can suppress programmed cell death in plants and yeast. Y Jamir M Guo H-S Oh T Petnicki-Ocwieja S Chen X Tang MB Dickman A Collmer JR Alfano, Plant J. 2004 37 4 554 565 14756767
49. Suppression of host defense in compatible plant- Pseudomonas syringae interactions. K Nomura M Melotto S-Y He, Curr Opin Plant Biol. 2005 8 4 361 368 15936244
50. The plant immune system. JDG Jones JL Dangl, Nature. 2006 444 7117 323 329 17108957
51. Check-in procedures for plant cell entry by biotrophic microbes. A Genre P Bonfante, Mol Plant Microbe Interact. 2007 20 9 1023 1030 17849704
52. Inhibition of apoptosis by intracellular protozoan parasites. VT Heussler P Küenzi S Rottenberg, Int J Parasitol. 2001 31 1166 1176 11563357
53. Inhibition of Fas-mediated apoptosis by Trpanosoma cruzi infection. J Nakajima-Shimada C Zou M Takagi M Umeda T Nara T Aoki, Biochim Biophys Acta. 2000 1475 175 183 10832033
54. Programmed Cell Death 5 from Toxoplasma gondii: a secreted molecule that exerts a pro-apoptotic effect on host cells. H Bannai Y Nishikawa T Matsuo O Kawase J Watanabe C Sugimoto X Xuan, Mol Biochem Parasitol. 2008 159 112 120 18406478
55. Toxoplasma gondii inhibits ultraviolet light-induced apoptosis through multiple interactions with the mitochondrion-dependent programmed cell death pathway. JC Carmen L Hardi AP Sinai, Cell Microbiol. 2006 8 2 301 315 16441440
56. Toxmoplasma gondii-infected cells are resistant to multiple inducers of apoptosis. PB Nash MB Purner RP Leon P Clarke RC Duke TJ Curiel, J Immunol. 1998 160 1824 1830 9469443
57. Direct inhibition of cytochrome c-induced caspase activation in vitro by Toxoplasma gondii reveals novel mechanisms of interference with host cell apoptosis. P Keller F Schaumberg SF Fischer G Häcker U Groß CGK Lüder, FEMS Microbiology Letters 2006 258 312 319 16640590
58. Activation of NF-κB by Toxoplasma gondii correlates with increased expression of antiapoptotic genes and localization of phosphorylated IκB to the parasitophorous vacuole membrane. RE Molestina TM Payne I Coppens AP Sinai, Journal of Cell Science 2003 116 21 4359 4371 12966164
59. Parasite-mediated nuclear factor kappaB regulation in lymphoproliferation caused by Theileria parva infection. GH Palmer JJ Machado P Fernandez V Heussler T Perinat DA Dobbelaere, Proc Natl Acad Sci USA 1997 94 12527 12532 9356483
60. The downy mildew effector proteins ATR1 and ATR13 promote disease susceptibility in Arabidopsis thaliana. KH Sohn R Lei A Nemri JDG Jones, The Plant Cell 2007 19 4077 4090 18165328
61. Parasitic inhibition of cell death facilitates symbiosis. BA Pannebakker B Loppin CPH Elemans L Humblot F Vavre, Proc Natl Acad Sci USA 2007 104 1 213 215 17190825
62. Reactive oxygen species play a role in regulating fungus-perennial ryegrass mutualistic interaction. A Tanaka MJ Christensen D Takemoto P Park B Scott, The Plant Cell 2006 18 1052 1066 16517760
63. NoxA activation by the small GTPase RacA is required to maintain a mutualistic symbiotic association between Epichloë festucae and perennial ryegrass. A Tanaka D Takemoto G-S Hyon P Park B Scott, Molecular Microbiology 2008 68 5 1165 1178 18399936
64. Contrasting mechanisms of defense against biotrophic and necrotrophic pathogens. J Glazebrook, Annual Review of Phytopathology 2005 43 205 227 16078883
65. The hypersensitive response facilitates plant infection by the necrotrophic pathogen Botrytis cinerea. EM Govrin A Levine, Current Biology 2000 10 13 751 757 10898976
66. The wheat mitogen-activated protein kinases TaMPK3 and TaMPK6 are differentially regulated at multiple levels during compatible disease interactions with Mycosphaerella graminicola. JJ Rudd J Keon KE Hammond-Kosack, Plant Physiology 2008 147 802 815 18441220
67. Botrytis cinerea virulence factors: new insights into a necrotrophic and polyphageous pathogen. M Choquer E Fournier C Kunz C Levis J-M Pradier A Simon M Viaud, FEMS Microbiology Letters 2007 277 1 1 10 17986079
68. 2-generating systems in Botrytis cinerea: the major Cu-Zn-superoxide dismutase (BCSOD1) contributes to virulence on French bean, whereas a glucose oxidase (BCGOD1) is dispensable. Y Rolke S Liu T Quidde B Williamson A Schouten K-M Weltring V Siewers KB Tenberge B Tudzynski P Tudzynski, Molecular Plant Pathology 2004 5 1 17 27
69. Oxalic acid, a pathogenicity factor for Sclerotinia sclerotiorum, suppresses the oxidative burst of the host plant. SG Cessna VE Sears MB Dickman PS Low, Plant Cell 2000 12 2191 2199 11090218
70. Oxalic acid is an elicitor of plant programmed cell death during Sclerotinia sclerotiorum disease development. KS Kim J-Y Min MB Dickman, Molecular Plant-Microbe Interactions 2008 21 5 605 612 18393620
71. Expression of an oxalate oxidase gene in tomato and severity of disease caused by Botrytis cinerea and Sclerotinia sclerotiorum. A Walz I Zingen-Sell M Loeffler M Sauer, Plant Pathology 2008 57 453 458
72. Oxalate production by fungi: its role in pathogenicity and ecology in the soil environment. MV Dutton CS Evans, Canadian journal of microbiology 1996 42 881 895
73. An endopolygalacturonase from Sclerotinia sclerotiorum induces calcium-mediated signaling and programmed cell death in soybean cells. A Zuppini L Navazio L Sella C Castiglioni F Favaron P Mariani, Molecular Plant-Microbe Interactions 2005 18 8 849 855 16134897
74. Comparative genomics reveals what makes an enterobacterial plant pathogen. IK Toth L Pritchard PRJ Birch, Annual Review of Phytopathology 2006 44 1 305 336 16704357
75. Erwinia carotovora elicitors and Botrytis cinerea activate defense responses in Physcomitrella patens. IPd Leon JP Oliver A Castro C Gaggero M Bentancor S Vidal, BMC Plant Biology 2007 7 52 17922917
76. Transcriptional adaptation of Mycosphaerella graminicola to programmed cell death (PCD) of its susceptible wheat host. J Keon J Antoniw R Carzaniga S Deller JL Ward JM Baker MH Beale K Hammond-Kosack JJ Rudd, Molecular Plant-Microbe Interactions 2007 20 2 178 193 17313169
77. Transcriptome analysis of trichothecene-induced gene expression in barley. J Boddu S Cho GJ Muehlbauer, Molecular Plant-Microbe Interactions 2007 20 11 1364 1375 17977148
78. The C-terminal half of Phytophthora infestans RXLR effector AVR3a is sufficient to trigger R3a-mediated hypersensitivity and suppress INF1-induced cell death in Nicotiana benthamiana. JIB Bos T-D Kanneganti C Young C Cakir E Huitema J Win MR Armstrong PRJ Birch S Kamoun, The Plant Journal 2006 48 2 165 176 16965554
79. Conserved C-terminal motifs required for avirulence and suppression of cell death by Phytophthora sojae effector Avr1b. D Dou SD Kale X Wang Y Chen Q Wang X Wang RHY Jiang FD Arredondo RG Anderson PB Thakur, Plant Cell 2008 20 4 1118 1133 18390593
80. Molecular diversity at the plant-pathogen interface. JM McDowell SA Simon, Developmental and Comparative Immunology 2008 32 736 744
81. Classification of cell death: recommendations of the Nomenclature Committee on Cell Death. G Kroemer L Galluzi P Vandenabeele J Abrams ES Alnemri EH Baehrecke MV Blagosklonny WS El-Deiry P Golstein DR Green, Cell Death and Differentiation 2009 16 3 11