1.       Asai, T., G. Tena, J. Plotnikova, M.R. Willmann, W.-L. Chiu, L. Gomez-Gomez, T. Boller, F.M. Ausubel and J. Sheen (2002) MAP kinase signaling cascade in Arabidopsis innate immunity. Nature 415:977-983.

2.       Bittner, M., R. Butow, J. DeRisi, M. Diehn, J. Eberwine, C.B. Epstein, R. Glynne, S. Grimmond, T. Ideker, J.E. Kacharmina, S. Katsabanis, J. Khan, J. Lee, C.L. Liu, P. Marciano, F.M. Marincola, T. McIntosh, D. Monte*, J.R. Pollack, V. Rhodius, S. Somerville, E. Tom, E. Wang, J.S. Wei, D. Wilhite, and S. Ybarra. (2002). Expression analysis of RNA. In: DNA Microarrays: A Molecular Cloning Manual (D. Botwell and J. Sambrook, eds.). Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY. pp. 101-288.

3.       Childs, G., J. DeRisi, T. Harris, A. Holloway, B.-H. Hou, A. Massimi, M. Murphy and S. Somerville. (2002). Printing spotted glass microarrays. In: DNA Microarrays: A Molecular Cloning Manual (D. Botwell and J. Sambrook, eds.). Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY. pp. 61-100.

4.       Cui, J., G. Jander, L. Racki, P.D. Kim, N.E. Pierce and F.M. Ausubel (2002) Signals involved in Arabidopsis resistance to Trichoplusia ni caterpillars induced by virulent and avirulent strains of the phytopathogen Pseudomonas syringae. Plant Physiology 129:551-564.

5.       Jackson, R.B., C.R. Linder, M. Lynch, M. Purugganan, S. Somerville and S. Thayer*. (2002) Linking molecular insight and ecological research. Trends in Ecology and Evolution 17: 409-414.

6.       Klok, E.J., I. Wilson, D. Wilson, S.C. Chapman, R.M. Ewing*, R. Dolferus, W.J. Peacock, S.C. Somerville and E.S. Dennis. (2002). Expression profile analysis of the low oxygen response in Arabidopsis root cultures. The Plant Cell 14: 2181-2494.

7.       Ramonell, K.M., B. Zhang, R.M. Ewing, Y. Chen, D. Xu, G. Stacey and S. Somerville. (2002). Microarray analysis of chitin elicitation in Arabidopsis thaliana. Molecular Plant Pathology 3: 301-311.

8.       Ramonell, K.M. and S. Somerville. (2002). The genomics parade of pathogen responses: To infinity and beyond. Current Opinion in Plant Biology 5: 291-294.

9.       Zhang, B., K. Ramonell, S. Somerville and G. Stacey (2002) Characterization of early, chitin-induced gene expression in Arabidopsis. Molecular Plant-Microbe Interactions 15: 963-970.

10.    Alonso, J.M., A. N. Stepanova, R. Solano, E. Wisman, S. Ferrari, F. M. Ausubel and J.R. Ecker (2003) New components of the ethylene signaling pathway uncovered by a novel mutant screen. Proc. Natl. Acad. Sci. USA 100:2992-2997.

11.    Cartieaux, F., M.-C. Thibaud, L. Zimmerli, P. Lessard, C. Sarrobert, P. David, A. Gerbaud, C. Robaglia, S. Somerville and L. Nussaume (2003) Transcriptome analysis of Arabidopsis colonized by a plant-growth promoting rhizobacterium reveals a general effect on disease resistance. Plant Journal 36:177-188.

12.    Collins, N., H. Thordal-Christensen, V. Lipka, S. Bau, E. Kombrink, M. Stein, R. Hückelhoven, S. Somerville and P. Schulze-Lefert (2003) Conserved SNARE secretion machinery components mediate cell wall penetration resistance against powdery mildew plant pathogens. Nature 425:973-977.

13.    Ferrari, S., D. Vairo, F.M. Ausubel, F. Cervone and G. De Lorenzo (2003) Differentially regulated Arabidopsis polygalacturonase-inhibiting protein (PGIP) genes encode functional inhibitors capable of limiting fungal infection. The Plant Cell 15:93-106.

14.    Ferrari, S., J. Plotnikova, G. DeLorenzo and F.M. Ausubel (2003) Arabidopsis local resistance to Botrytis cinerea involves salicylic acid and camalexin and requires EDS4 and PAD2, but not SID2, EDS5 or PAD4. Plant Journal 35:193-205.

15.    Nishimura, M., M. Stein, B.-H. Hou, J. Vogel, H. Edwards and S. Somerville. (2003). Loss of a callose synthase results in salicylic acid-dependent disease resistance. Science 301: 969-972.

16.    Schenk, P.M., K. Kazan, J.M. Manners, J.P. Anderson, B. Simpson, I. Wilson, S.C. Somerville and D.J. Maclean (2003) Systemic gene expression in Arabidopsis during an incompatible interaction with Alternaria brassicicola. Plant Physiology 132:999-1010.

17.    Durrant, W. and X. Dong (2004) Systemic Acquired Resistance. Annual Review of Phytopathology 42:185-209.

18.    Rojo, E., R. Martin, C. Carter, J. Zouhar, S. Pan, J. Plotnikova, H. Jin, M. Paneque, J.J. Sanchez-Serrano, B. Baker, F.M. Ausubel and N. Raikhel (2004) VPEg exhibits a caspase-like activity and triggers defense against pathogens. Current Biology 14:1897-1906.

19.    Vorwerk, S., S. Somerville and C. Somerville. (2004). The role of plant cell wall polysaccharide composition in disease resistance. Trends in Plant Science 9:203-209.

20.    Zimmerli, L., and S. Somerville (2004) Transcriptomics in plants: From expression to gene function. In: Plant Functional Genomics (D. Leister, ed.), Haworth Food Products Press, Binghamton, NY. pp. 55-84.

21.    Ausubel, F.M. (2005) Are innate immune signaling pathways in plants and animals conserved? Nature Immunology 6:973-979. PMID: 16177805

22.    Bais, H.P., B. Prithiviraj, A.K. Jha, F.M. Ausubel and J.M. Vivanco (2005) Mediation of pathogen resistance by exudation of antimicrobials from roots. Nature 434:217-221.

23.    Chang, J.H., J.M. Urbach, T.F. Law, L.W. Arnold, A. Hu, S. Gombar, S.R. Grant, F.M. Ausubel and J.L. Dangl (2005) A high-throughput, near-saturating screen for type III effector genes from Pseudomonas syringae. Proc. Natl. Acad. Sci. USA 102:2549-2554.

24.    Cui, J., A.K. Bahrami, E.G. Pringle, G. Hernandez-Guzman, C.L. Bender, N.E. Pierce and F.M. Ausubel (2005) Pseudomonas syringae manipulates systemic plant defenses against pathogens and herbivores. Proc. Natl. Acad. Sci. USA 102:1791-1796.

25.    Diener, A. C. and F.M. Ausubel (2005) RESISTANCE TO FUSARIUM OXYSPORUM 1, a dominant Arabidopsis disease-resistance gene, is not race specific. Genetics 171:305-321. PMID: 15965251; PMCID: PMC1456520

26.    Lipka, V., J. Dittgen, P. Bednarek, R. Bhat, M. Wiemer, M. Stein, J. Landtag, W. Brandt, S. Rosahl, D. Scheel, F. Llorente, A. Molina, J. Parker, S. Somerville, and P. Schulze-Lefert (2005) Pre- and post-invasion defenses both contribute to nonhost resistance in Arabidopsis. Science 301:1180-1183.

27.    Mission, J., K.G. Roghothama, A. Jain, J. Jouhet, M.A. Block, R. Bligny, P. Ortet, A. Creff, S. Somerville, N. Rolland, P. Doumas, P. Nacry, L. Herrerra-Estrella, L. Nussaume, and M.-C. Thibaud (2005) A genome-wide transcriptional analysis using Arabidopsis thaliana Affymetrix gene chips determined plant responses to phosphate deprivation. Proc. Natl. Acad. Sci. USA 102:11934-11939.

28.    Ramonell, K., M. Berrocal-Lobo, S. Koh, J. Wan, H. Edwards, G. Stacey, and S. Somerville (2005) Loss-of-function mutations in chitin responsive genes show increased susceptibility to the powdery mildew pathogen, Erysiphe cichoracearum. Plant Physiology 138:1027-1036.

29.    Wang, D., N.D. Weaver, M. Kesarwani, and X. Dong (2005) Induction of protein secretory pathway is required for systemic acquired resistance. Science 308:1036-1040.

30.    Bindschedler, L.V., J. Dewdney, K.A. Blee, J.M. Stone, T. Asai, J. Plotnikov, C. Denoux, T. Hayes, C. Gerrish, D.R. Davies, F.M. Ausubel, and G.P. Bolwell (2006) Peroxidase-dependent apoplastic oxidative burst in Arabidopsis required for pathogen resistance. Plant Journal 47:851-863. PMID: 16889645

31.    Consonni, C., M.E. Humphry, H.A. Hartmann, M. Livaja, J. Durner, L. Westphal, J. Vogel, V. Lipka, B. Kemmerling, P. Schulze-Lefert, S.C. Somerville, and R. Panstruga (2006) Conserved requirement for a plant host cell protein in powdery mildew pathogenesis. Nature Genetics 38:716-720.

32.    Hernández-Blanco, C., D.X. Feng, J. Hu, A. Sánchez-Vallet, L. Deslandes, F. Llorente, M. Berrocal-Lobo, H. Keller, X. Barlet, C. Sánchez-Rodríguez, L.K. Anderson, S. Somerville, Y. Marco, and A. Molina (2006) Impairment of cellulose synthases required for Arabidopsis secondary cell wall formation enhances disease resistance. The Plant Cell 19:890-903.

33.    Koh, S., and S. Somerville (2006) Show and tell: Cell biology of pathogen invasion. Current Opinion in Plant Biology 9:406-13.

34.    Mosher, R.A., W.E. Durrant, D. Wang, J. Song, and X. Dong (2006) A comprehensive structure-function analysis of SNI1 defines essential regions and transcriptional repressor activity. The Plant Cell 18:1750-65.

35.    Stein, M., J. Dittgen, C. Sánchez-Rodriguez, B.-H. Hou, A. Molina, P. Schulze-Lefert, V. Lipka, and S. Somerville (2006) Arabidopsis PEN3/PDR8, an ATP binding cassette transporter, contributes to nonhost resistance to inappropriate pathogens that enter by direct penetration. The Plant Cell 18:731-746.

36.    Wang, D., N. Amornsiripanitch, and X. Dong (2006) A genomic approach to identifying regulatory nodes in the transcriptional network of systemic acquired resistance in plants. PLoS Pathogens 2(11):e123 (cover story).

37.    Espinoza, G., Medina, C., Somerville, S., Arce-Johnson, P. (2007) Senescence-associated genes induced during compatible viral interactions with grapevine and Arabidopsis. Journal of Experimental Biology 58: 3197-3212.

38.    Ferrari, S., R. Galletti, C. Denoux, G. De Lorenzo, F.M. Ausubel, J. Dewdney (2007) Resistance to Botrytis cinerea induced in Arabidopsis by elicitors is independent of salicylic acid, ethylene or jasmonate signaling but requires PHYTOALEXIN DEFICIENT3. Plant Physiology 144:367-369.

39.    Kesarwani, M., J. Yoo, and X. Dong (2007) Genetic interactions of TGA transcription factors in the regulation of pathogenesis-related genes and disease resistance in Arabidopsis. Plant Physiology 144:336-46.

40.    Sato, M., R.M. Mitra, J. Coller, W. Wang, N.W. Spivey, J. Dewdney, C. Denoux, J. Glazebrook, and F. Katagiri (2007) A high-performance, small-scale microarray for expression profiling of many samples in Arabidopsis-pathogen studies. The Plant Journal 49:565-577.

41.    Vorwerk, S., C. Schiff, M. Santamaria, S. Koh, M. Nishimura, J. Vogel, C. Somerville, and S. Somerville (2007) EDR2 negatively regulates salicylic acid-based defenses and cell death during powdery mildew infections of Arabidopsis thaliana. BMC Plant Biology 7:35.

42.    Wang, D., K. Pajerowska-Mukhtar, and X. Dong (2007) Salicylic acid inhibits pathogen growth in plants through repression of the auxin signaling pathway. Current Biology 17:1784-1790.

43.    Chang, C.-S., Li, Y.-H., Chen, L.-T., Chen, W.-C., Hsieh, W.-P., Shin, J., Jane, W.-N., Chou, S.-J., Choi, G., Hu, J.-M., Somerville, S., Wu, S.-H.* (2008) LZF1, a HY-5-regulated transcriptional factor, functions in Arabidopsis de-etiolation. The Plant Journal 54: 205-219.

44.    Denoux, C.,  Galletti, R., Mammarella, N., Gopalan, S., Werck, D., De Lorenzo, G., Ferrari, S., Ausubel, F. M. , Dewdney, J. Activation of Defense Response Pathways by OGs and Flg22 Elicitors in Arabidopsis Seedlings. (2008) Molecular Plant 1: 423-445.

45.    Denoux, C., R. Galletti, S. Ferrari, W. Songnuan, C. Danna, Y. Millet, N. Clay, S. Gopalan, G. De Lorenzo, J. Dewdney, and F.M. Ausubel (2008) Paper 87. Characterization of Arabidopsis MAMP response pathways. In: Biology of Plant-Microbe Interactions, Volume 6.  (M. Lorito, S.L. Woo, and F. Scala, eds.) International Society for Molecular Plant-Microbe Interactions, St. Paul, MN.

46.    Fabro, G., Di Rienzo, J.A., Voigt, C., Savchenko, T., Dehesh, K., Somerville, S., Álvarez, M.E. (2008) Genome-wide expression profiling Arabidopsis thaliana at the stage of Golovinomyces cichoracearum haustorium formation. Plant Physiology 146: 1421-1439.

47.    Galletti, R., C. Denoux, S. Gambetta, J. Dewdney, F.M. Ausubel, G. De Lorenzo, and S. Ferrari (2008) The AtrbohD-mediated oxidative burst elicited by oligogalacturonides in Arabidopsis thaliana is dispensable for the activation of defense responses effective against Botrytis cinerea. Plant Physiology 148:1695-1706. PMID:18790995

48.    Songnuan, W., Y. Millet, C. Denoux, N. Clay, and F.M. Ausubel (2008) Paper 88. A seedling assay for MAMP signaling and infection studies In: Biology of Plant-Microbe Interactions, Volume 6.  (M. Lorito, S.L. Woo, and F. Scala, eds.) International Society for Molecular Plant-Microbe Interactions, St. Paul, MN.

49.    Tada, Y., Spoel, S.H., Pajerowska-Mukhtar, K., Mou, Z., Song, J., Wang, C., Zuo, J., Dong, X. (2008) Plant immunity requires conformational changes of NPR1 via S-nitrosylation and thioredoxins. Science 321: 952-956.

50.    Zhang, Z., Lenk, A., Andersson, M.X., Gjetting, T., Pedersen, C., Nielsen, M.E., Hagedorn, P., Hou, B.-H., Somerville, S.C. Thordal-Christensen, H. (2008) A lesion-mimic syntaxin double mutant in Arabidopsis reveals novel complexity of pathogen defense signaling. Molecular Plant 1: 510-527.

51.    Zimmerli, L., Hou, B.-H., Tsai, C.-H., Jakab, G., Mauch-Mani, B., Somerville, S. (2008) The xenobiotic beta-aminobutyric acid enhances Arabidopsis thermotolerance. The Plant Journal 53: 144-156.

52.    Clay, N.K., A.M. Adio, C. Denoux, G. Jander, and F.M. Ausubel (2009) Glucosinolate metabolites required for an Arabidopsis immune response. Science, 323: 95-101

53.    Chandran, D., Y.C. Tai, G. Hather, J. Dewdney, C. Denoux, D.G. Burgess, F.M. Ausubel, T.P. Speed, and M.C. Wildermuth (2009) Temporal global expression data reveals known and novel salicylate-impacted processes and regulators mediating powdery mildew growth and reproduction on Arabidopsis. Plant Physiology 149: 1435-1451.

54.    Spoel, S .H., Mou, Z., Spivey, N. W., Tada, Y., Genschik, P., Dong, X. (2009) Proteasome-mediated turnover of the transcription co-activator NPR1 plays dual roles in regulating plant immunity. Cell 137: 860-872.

55.    Sánchez-Rodríguez, C., Estévez, J.M., Llorente, F., Hernández-Blanco, C., Pagán, I.,  Berrocal, M., Marco, Y., Somerville, S., Molina, A. (2009) The ERECTA receptor-like kinase regulates cell wall-mediated resistance to pathogens in Arabidopsis thaliana. Molec. Plant-Microbe Interact. 22: 953-963.

56. Dong, X. and Kahmann, R. (2009) Battle for survival: plants and their allies and enemies. Current Opinion in Plant Biology, 12:387–389.

57. Hématy, K., Cherk, C., Somerville, S.C. (2009). Host-pathogen warfare at the plant cell wall. Current Opinion in Plant Biology 12:406-413.

58. Saijo, Y., Tintor, N., Lu, X., Rauf, P., Pajerowska-Mukhtar, K., Häweker, H., Dong, X., Robatzek, S., and Schulze-Lefert, P. (2009) Receptor quality control in the endoplasmic reticulum for plant innate immunity.  EMBO Journal (in press).

59.    Barnaby J. Y., Tada, Y., Wang, W., Caldelari-Guex, D., Lee, D., Dong, X. (2009) Functional dissection of resistance gene-mediated plant immunity to downy mildew (in preparation).