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5 Yeats, T.H., Martin, L.B.B., Viart, H. M-F., Isaacson, T., He, Y., Zhao, L., Matas, A.J., Buda, G., Domozych, D.S. and Rose, J.K.C. (2012) The identification of cutin synthase: formation of the plant polyester cutin. (In press Nature Chemical Biology).
7 Ruiz-May, E., Thannhauser, T.W., Zhang, S. and Rose, J.K.C. (2012) Analytical technologies for identification and characterization of the plant N-glycoproteome. In press, Frontiers in Plant Physiology.
9 Lee, S.J. and Rose, J.K.C. (2012) A yeast secretion trap assay for identification of secreted proteins from eukaryotic phytopathogens and their plant hosts. Methods in Molecular Biology 835:519-30.
11 The Tomato Genome Consortium (2012) The tomato genome sequence provides insights into fleshy fruit evolution. Nature 485: 635-641.
13 Yeats, T.H., Buda, G.J., Wang, Z., Moyle, L.C., Jetter, R., Schaffer, A.A. and Rose, J.K.C. (2012) The fruit cuticles of wild tomato species exhibit architectural and chemical diversity, providing a new model for studying the evolution of cuticle function. The Plant Journal 69: 655-666.
15 Zhang, S., Sherwood, R.W., Yang, Y., Tara Fish, T., Chen, W., McCardle, J. A., Jones, R.M., Yusibov, V., Ruiz-May, E., Rose, J.K.C. and Thannhauser, T.W. (2012) Comparative characterization of the glycosylation profiles of an influenza hemagglutinin produced in plant and insect hosts. Proteomics 12: 1269-88.
17 Lopez-Casado, G., Covey, P.A., Bedinger, P.A., Mueller, L.A., Zhang, S., Fei, Z., Giovannoni, J.J. and Rose, J.K.C. (2012) Enabling proteomic studies with RNA-Seq: the proteome of tomato pollen as a test case. Proteomics 12: 761-774.
19 Sorensen, I., Rose, J.K.C., Doyle, J.J., Domozych, D.S. and Willats, W.G.T. (2012) The charophycean green algae as model systems to study plant cell walls and other evolutionary adaptations that gave rise to land plants. Plant Signaling and Behavior 7: 1-3.
21 Acuna, J.R., Padilla, B.E., Florez C.P., Rubio, J.D., Herrera, J.C., Benivades, P., Lee, S.-J., Yeats, T.H., Egan, A.N., Doyle, J.J. and Rose, J.K.C. (2012) Adaptive horizontal transfer of a bacterial gene to an invasive insect pest of coffee. Proceedings of the National Academy of Sciences USA 109: 4197-4202.
23 Ruiz-May, E., Kim, S.J., Brandizzi, F. and Rose, J.K.C. (2012) The secreted plant N-glycoproteome and associated secretory pathways. Frontiers in Plant Physiology 3: 117.
25 Lee, J.-M., Joung, J.-G., McQuinn, R., Chung, M.-Y., Fei, Z., Tieman, D., Klee, H. and Giovannoni, J. (2012) Combined transcriptome, genetic diversity and metabolite profiling in tomato fruit reveals that the ethylene response factor SlERF6 plays an important role in ripening and carotenoid accumulation. The Plant Journal 70: 191-204.
27 Catala, C., Howe, K.J., Hucko, S., Rose, J.K.C. and Thannhauser, T.W. (2011) Towards characterization of the glycoproteome of tomato (Solanum lycopersicum) fruit using Concanavalin A lectin affinity chromatography and LC-MALDI-MS/MS analysis. Proteomics 11: 1530-1544.
29 Lee, S.-J. and Rose, J.K.C. (2011) Characterization of the plant cell wall proteome using high throughput screens. In The Plant Cell Wall. Methods and Protocols. Methods in Molecular Biology. 715: 255-272.
31 Wang, Z., Guhling, O., Yao, R., Li, F., Yeats, T.H., Rose, J.K.C., Jetter, R. (2011) Two oxidosqualene cyclases responsible for biosynthesis of tomato fruit cuticular triterpenoids. Plant Physiology 155: 540-552.
33 Centeno, D., Nunes-Nesi, A., Osorio, S., Bertolo, A.L. F., Carneiro, R.T., Luiz-Arajo W., Steinhauser, M.-C., Michalska, J., Rohrmann, J., Geigenberger, P., Oliver, S., Stitt, M., Carrari, F., Rose, J.K.C. and Fernie, A.R. (2011) Malate plays a crucial role in starch metabolism, ripening, and soluble solid content of tomato fruit and affects postharvest softening. The Plant Cell 23: 162-184.
35 Yeom, S.-I., Baek, H.-K., Oh, S.-K., Kang, W.-H., Lee, S.-J., Lee, J.M., Seo, E., Rose, J.K.C., Kim, B.-D. and Choi, D. (2011) Title: Use of a secretion trap screen in pepper following Phytophthora capsici infection reveals novel functions of secreted plant proteins in modulating cell death. Molecular Plant Microbe Interactions 24: 671-684.
37 Rugkong, A., McQuinn, R., Giovannoni, J.J., Rose, J.K.C. and Watkins, C.B. (2011) Expression of ripening-related genes in cold stored tomato fruit. Postharvest Biology and Technology 61: 1-14.
39 Osorio, S., Alba, R., Damasceno, C.M.B., Lopez-Casado, G., Lohse, M., Zannor, M.I., Tohge, T., Usadel, B., Rose, J.K.C., Fei, Z., Giovannoni, J.J. and Fernie, A.R. (2011) Systems biology of tomato fruit development: combined transcript, protein and metabolite analysis of tomato transcription factor (nor, rin) and ethylene receptor (Nr) mutants reveals novel regulatory interactions. Plant Physiology 157: 405-425.
41 Zhou, S.P., Sauve, R,J., Liu, Z., Reddy, S., Bhatti, S., Hucko, S.D., Yong, Y., Fish, T. and Thannhauser, T.W. (2011) Heat-induced proteome changes in tomato leaves. Journal of the American Science for Horticultural Science. 136: 219-226.
43 Zhou, S.P., Sauve, R.J., Liu, Z., Reddy, S., Bhatti, S., Hucko, S.D., Fish, T., and Thannhauser, T.W. (2011) Identification of salt-induced changes in leaf and root proteomes of the wild tomato, Solanum chilense. Journal of the American Society for Horticultural Science 136: 288-302.
45 Sorensen, I., Pettolino, F. A., Bacic, A., Ralph, J., Lu, F., O'Neill, M., Fei, Z., Rose, J.K.C., Domozych, D. and Willats, W.G.T. (2011) The charophycean green algae provide insights into the early origins of plant cell walls. The Plant Journal 68: 201-211.
47 Matas, A.J., Yeats, T.H., Buda, G.J., Zheng, Y., Chatterjee, S., Tohge, T., Ponnala, L., Fernie, A.R., Adato, A., Aharoni, A., Stark, R., Fei, Z., Giovannoni, J.J. and Rose, J.K.C. (2011) Tissue and cell type specific transcriptome profiling of expanding tomato fruit provides insights into metabolic and regulatory specialization and cuticle formation. The Plant Cell 23: 3893-3910.
49 The International Brachypodium Initiative (2010) Genome sequence analysis of the model grass Brachypodium distachyon: insights into grass genome evolution. Nature 462: 763-768.
51 Kelley, B.S., Lee, S.-J., Damasceno, C.M.B., Chakravarthy, S., Kim, B.-D., Martin, G.B. and Rose, J.K.C. (2010) A secreted effector protein (SNE1) from Phytophthora infestans is a broadly acting suppressor of programmed cell death. The Plant Journal 62: 357-366.
53 Lee, S.-J. and Rose, J.K.C. (2010) Mediation of the transition from biotrophy to necrotrophy in hemibiotrophic plant pathogens by secreted effector proteins. Plant Signaling and Behavior 5/6: 1559-2316.
55 McCann, M.C. and Rose, J.K.C. (2010) Blueprints for building plant cell walls. Plant Physiology 153: 365.
57 Pan, I.L., McQuinn, R., Giovannoni, J.J., Irish, V.F. (2010) Functional diversification of AGAMOUS lineage genes in regulating tomato flower and fruit development. Journal of Experimental Botany 61: 1795-1806.
59 Rugkong A., Rose, J.K.C., Lee, S.-J., Giovannoni, J.J., O'Neill, M. and Watkins, C.B. (2010) Cell wall metabolism in cold-stored tomato fruit. Postharvest Biology and Technology 57: 106-113.
61 Rose, J.K.C. and Lee, S.-J. (2010) Straying off the highway: trafficking of secreted plant proteins and complexity in the plant cell wall proteome. Plant Physiology 153: 433-436.
63 Yeats, T.H., Howe, K.J., Matas, A.J., Buda, G.J., Thannhauser, T.W. and Rose, J.K.C. (2010) Mining the tomato fruit cuticular and epidermal cell wall proteome for proteins associated with cuticle biogenesis. Journal of Experimental Botany 61: 3759-3771.
65 Matas, A.J., AgustÃ, J., Tadeo, F.R., Talón, M. and Rose, J.K.C. (2010) Tissue specific transcriptome profiling of the citrus fruit epidermis and subepidermis using laser capture microdissection. Journal of Experimental Botany 61: 3321-3330.
67 Enfissi, E., Barneche, F., Ahmed, I., Lichtle, C., Gerrish, C., McQuinn, R., Giovannoni, J., Lopez-Juez., E., Bowler, C., Bramley, P. and Fraser, P. (2010) Integrative transcript and metabolite analysis of nutritionally enhanced DE-ETIOLATED1 downregulated tomato fruit. The Plant Cell 22: 1190-1215.
69 Chung, M.-Y., Vrebalov, J., Lee, J.-M., McQuinn, R., Chung, J.-D., Klein, P. and Giovannoni. J. (2010) A tomato (Solanum lycopersicum) APETALA2/ERF gene, SlAP2a, is a negative regulator of fruit ripening. The Plant Journal 64: 936-947.
71 DeBono, A., Yeats, T., Rose, J.K.C., Bird, D., Jetter, R., Kunst, L. and Samuels, L. (2009) LTPG is a GPI-anchored lipid transfer protein required for export of lipids to the plant surface. The Plant Cell 21:1230-1238.
73 Matas, A.J., Gapper, N., Chung, M.-Y., Giovannoni, J.J. and Rose, J.K.C. (2009) Biology and genetic engineering of fruit maturation for enhanced quality and shelf-life. Current Opinion in Biotechnology 20: 197-203.
75 Isaacson, T., Kosma, D.K., Matas, A.J., Buda, G.J., He, Y., Yu, B., Pravitasari, A., Batteas, J.D., Stark, R.E., Jenks, M.A. and Rose, J.K.C. (2009) Cutin deficiency in the tomato fruit cuticle consistently affects resistance to microbial infection and biomechanical properties, but not transpirational water loss. The Plant Journal 60: 363-377.
77 Buda, G.J., Isaacson, T., Matas, A.J., Paolillo, D.J. and Rose, J.K.C. (2009) Three dimensional imaging of plant cuticle architecture using confocal scanning laser microscopy. The Plant Journal 60: 378-385.
79 Mueller, L.A. et al. (2009) A snapshot of the emerging tomato genome sequence. The Plant Genome 2: 78-92.
81 Vrebalov, J., Pan, I.L., Matas, A.J., McQuinn, R., Chung., M.Y., Poole, M., Rose, J.K.C., Seymour, G., Giovannoni, J.J. and Irish, V.F. (2009) Fleshy fruit expansion and ripening are regulated by the tomato SHATTERPROOF gene, TAGL1. The Plant Cell 21: 3041-3062.
83 Xiang, B.S. Yang, X.L. Thannhauser, T.W. (2009) Protein N- and C-termini identification using mass spectrometry and isotopic labeling. Rapid Communications in Mass Spectrometry 23: 2102-2106.
85 Zhou, S.P., Sauve, R. and Thannhauser, T.W. (2009) Proteome changes induced by aluminium stress in tomato roots. Journal of Experimental Botany 60: 1849-1857.
86 Zhou, S., Sauve, R., Thannhauser, T.W. (2009) Aluminum induced proteome changes in tomato cotyledons. Plant Signaling and Behavior 4: 769-772.
88 Damasceno, C.M.B., Bishop, J.G., Ripoll, D.R., Win, J., Kamoun, S. and Rose, J.K.C. (2008) The structure of the glucanase inhibitor protein (GIP) family from Phytophthora species and co-evolution with plant endo-beta-1,3-glucanases. Molecular Plant-Microbe Interactions 21: 820-830.
90 Yeats, T.H. and Rose, J.K.C. (2008) The biochemistry and biology of extracellular plant lipid-transfer proteins (LTPs). Protein Science 17: 191-198.
92 Cara, B. and Giovannoni, J. (2008) The molecular biology of ethylene during fruit development and maturation. Plant Science 175: 106-113.
94 Urbanowicz, B.R. and Rose J.K.C. (2008) Sustainable biofuels: a daunting challenge for plant scientists. Chemistry Today 26: 23-25.
96 Lopez-Casado, G., Urbanowicz, B.R., Damasceno C.M.B. and Rose J.K.C. (2008) Plant glycosyl hydrolases and biofuels: a natural marriage. Current Opinion in Plant Biology 11: 329-337.
98 Alos, E., Roca, M., Iglesias, D.J., Minguez-Mosquera, M.I., Damasceno, C.M.B., Thannhauser, T.W., Rose, J.K.C., Talon, M. and Cercos (2008) An evaluation of the basis and consequences of a stay-green mutation in the navel negra (nan) citrus mutant using transcriptomic and proteomic profiling and metabolite analysis. Plant Physiology 147: 1300-1315.
100 Urbanowicz, B.R., Catala, C., Irwin, D., Wilson, D.B., Ripoll, D.R. and Rose, J.K.C. (2007) A tomato endo-beta-1,4-glucanase, SlCel9C1, represents a distinct subclass with a new family of carbohydrate binding modules (CBM49). Journal of Biological Chemistry 282: 12066-12074
102 Vincent, A.R., Saladie, M., Rose, J.K.C. and Labavitch, J.M. (2007) The linkage between cell wall metabolism and the ripening-associated softening of fruits: looking to the future. Journal of the Science of Food and Agriculture 87: 1435-1448.
104 Urbanowicz, B.R., Bennett, A.B., Catala, C., del Campillo, E., Hayashi, T., Henrissat, B., Hfte, H., McQueen-Mason, S., Patterson, S., Shoseyov, O., Teeri, T. and Rose, J.K.C. (2007) Structural organization and a standardized nomenclature for plant endo-beta-1,4-glucanases of glycosyl hydrolase family 9. Plant Physiology 144: 1693-1696.
106 Giovannoni, J. (2007) Fruit ripening mutants yield insights into ripening control. Current Opinion in Plant Biology 10: 283-289.
107 Damasceno, C.M.B. and Rose, J.K.C. (2007) Tandem-Affinity Purification (TAP) tags. Encyclopedia of Life Sciences. Pub. John Wiley & Sons, Ltd: Chichester. http://www.els.net
109 Tyler, B.M. et al. (2006) Phytophthora genome sequences uncover evolutionary origins and mechanisms of pathogenesis. Science 313: 1261-1266.
111 Isaacson, T., Saravanan, R.S., He, Y., Damasceno, C.M.B., Catala, C., Saladié, M. and Rose, J.K.C. (2006) Sample extraction techniques for enhanced proteomic analysis of plant tissues. Nature Protocols 1: 769-774.
113 Lee, S.-J. Kelley, B., Damasceno, C.M.B., St. John, B., Kim, B.-S. Kim, B.-D. and Rose, J.K.C. (2006) A functional screen to characterize the secretomes of eukaryotic phytopathogens and their hosts in planta. Molecular Plant Microbe Interactions 12: 1368-1377.
115 Lee, S.J., Kim, B.-D. and Rose, J.K.C. (2006) Identification of eukaryotic secreted and cell surface proteins using the yeast secretion trap screen. Nature Protocols 1: 2439-2447.
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