Projects

GENOMICS APPROACHES FOR IMPROVING NUTRITIONAL QUALITY OF FOOD CROP SPECIES Appropriated (D)   Accession Number: 420100

GENOMIC APPROACHES TO IMPROVING TRANSPORT AND DETOXIFICATION OF SELECTED MINERAL ELEMENTS IN CROP PLANTS Appropriated (D)   Accession Number: 420101

IDENTIFICATION AND MODULATION OF FUNCTIONAL PROTEIN ASSOCIATION NETWORKS FOR DROUGHT TOLERANCE IN SWITCHGRASS Reimbursable (R)   Accession Number: 424291

Publications (Clicking on the reprint icon will take you to the publication reprint.)

Proteomic analysis of chromoplasts from six crop species reveals insights into chromoplast function and development - (Peer Reviewed Journal)

Wang, Y., Yang, Y., Fei, Z., Yuan, H., Fish, T., Thannhauser, T.W., Mazourek, M., Kochian, L.V., Wang, X., Li, L. 2013. Proteomic analysis of chromoplasts from six crop species reveals insights into chromoplast function and development. Journal of Experimental Botany. 64(4):949-961.

The tomato genome sequence provides insight into fleshy fruit evolution - (Peer Reviewed Journal)

Ware, D., Thannhauser, T.W., White, R.A., Giovannoni, J.J. 2012. The tomato genome sequence provides insight into fleshy fruit evolution. Nature. 485:635-641. DOI: 10.1038/nature11119.

Transcriptome analysis of ectopic chloroplast development in green curd cauliflower (Brassica oleracea L. var. botrytis) - (Peer Reviewed Journal)

Zhou, X., Fei, Z., Thannhauser, T.W., Li, L. 2012. Transcriptome analysis of ectopic chloroplast development in green curd cauliflower (Brassica oleracea L. var. botrytis). Biomed Central (BMC) Plant Biology. 11:169.

The Or gene enhances carotenoid accumulation and stability during post-harvest storage of potato tubers - (Peer Reviewed Journal)

Li, L., Yang, Y., Xu, Q., Owsiany, K., Welsch, R., Chitchumroonchokchai, C., Lu, S., Van Eck, J., Deng, X., Failla, M., Thannhauser, T.W. 2012. The Or gene enhances carotenoid accumulation and stability during post-harvest storage of potato tubers. Molecular Plant. 5:339-352.

Evaluation of different multidimensional LC-MS/MS pipelines for iTRAQ-based proteomic analysis of potato tubers in response to cold storage - (Peer Reviewed Journal)

Yang, Y., Qiang, X., Owsiany, K., Zhang, S., Thannhauser, T.W., Li, L. 2011. Evaluation of different multidimensional LC-MS/MS pipelines for iTRAQ-based proteomic analysis of potato tubers in response to cold storage. Journal of Proteome Research. 10(10):4349-4886.

Biomarker discovery from the top down: protein biomarkers for efficient virus transmission by insects (Homoptera: Aphididae) discovered by coupling genetics and 2-D DIGE - (Peer Reviewed Journal)

Cilia, M., Howe, K.J., Fish, T., Smith, D., Mahoney, J., Tamborindeguy, C., Burd, J.D., Thannhauser, T.W., Gray, S.M. 2011. Biomarker discovery from the top down: protein biomarkers for efficient virus transmission by insects (Homoptera: Aphididae) discovered by coupling genetics and 2-D DIGE. Proteomics. 11:2440-2458.

Identification of salt-induced changes in leaf and root proteomes of the wild tomato solanum chilense - (Peer Reviewed Journal)

Zhou, S., Sauve, R., Liu, Z., Reddy, S., Bhatti, S., Hucko, S., Fish, T., 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.

Impact of whole genome protein analysis on gene discovery of disease models - (Book / Chapter)

Zhang, S., Yang, Y., Thannhauser, T.W. 2011. Impact of whole genome protein analysis on gene discovery of disease models. In: Gu, W. editor. Gene Discovery for Disease Models. 1st edition. Hoboken, NJ:Wiley-VCH. p. 471-530.

Genetics coupled to quantitative intact proteomics links heritable aphid and endosymbiont protein isoform expression to polerovirus transmission - (Peer Reviewed Journal)

Cilia, M., Tamborindeguy, C., Fish, T., Howe, K.J., Thannhauser, T.W., Gray, S.M. 2011. Genetics coupled to quantitative intact proteomics links heritable aphid and endosymbiont protein isoform expression to polerovirus transmission. Journal of Virology. 85(5):2148-2166.

Tangible benefits of the pea aphid genome sequencing in proteomics research: enhancements in protein identification, data incorporation, and evaluation criteria - (Peer Reviewed Journal)

Cilia, M., Thannhauser, T.W., Gray, S.M. 2010. Tangible benefits of the pea aphid genome sequencing in proteomics research: enhancements in protein identification, data incorporation, and evaluation criteria. Journal of Insect Physiology. Available: http://www.ncbi.nlm.nih.gov/pubmed/21070785.

The identification of protein biomarkers distinguishing virus transmission competent and refractive insect populations by coupling genetics with quantitative intact proteomics - (Proceedings)

Cilia, M., Tamborindeguy, C., Thannhauser, T.W., Gray, S.M. 2010. The identification of protein biomarkers distinguishing virus transmission competent and refractive insect populations by coupling genetics with quantitative intact proteomics. Journal of American Society for Mass Spectrometry. 58:42.

The proteomics toolbox for agricultural research: precision biomarker discovery using genetics - (Proceedings)

Cilia, M., Tamborindeguy, C., Thannhauser, T.W., Gray, S.M. 2010. The proteomics toolbox for agricultural research: precision biomarker discovery using genetics. Journal of Agricultural and Urban Entomology. 27:20.

Combined use of 2-D reverse phase chromatography & data independent mass spectrometry simultaneously characterizing proteomes of Schizaphis graminum & its obligate endosymbiont Buchnera aphidicola, from whole aphid extracts - (Abstract Only)

Mclaughlin, M., Cilia, M., Howe, K.J., Gray, S.M., Thannhauser, T.W. 2010. Combined use of 2-D reverse phase chromatography & data independent mass spectrometry simultaneously characterizing proteomes of Schizaphis graminum & its obligate endosymbiont Buchnera aphidicola, from whole aphid extracts. Journal of Biomolecular Techniques. 21(3):S58.

Transcriptome analysis of Pseudomonas syringae identifies new genes, ncRNAs, and antisense activity - (Peer Reviewed Journal)

Filiatrault, M.J., Stodghill, P., Bronstein, P., Moll, S., Lindeberg, M., Grills, G., Schweitzer, P., Wang, W., Schroth, G., Luo, S., Khrebtukova, I., Thannhauser, T.W., Yang, Y., Butcher, B.G., Cartinhour, S.W., Schneider, D.J. 2010. Transcriptome analysis of Pseudomonas syringae identifies new genes, ncRNAs, and antisense activity. Journal of Bacteriology. 192(9):2359-2372.

Involvement of a broccoli COQ5 methyltransferase in the production of volatile selenium compounds - (Peer Reviewed Journal)

Li, L., Zhou, X., Yuan, Y., Yang, Y., Rutzke, M., Thannhauser, T.W., Kochian, L.V. 2009. Involvement of a broccoli COQ5 methyltransferase in the production of volatile selenium compounds. Plant Physiology. 151:528-540.

Proteomic analysis of B-aminobutyric acid priming and aba-induction of drought resistance in crabapple (Malus pumila): effect on general metabolism, the phenylpropanoid pathway and cell wall enzymes - (Peer Reviewed Journal)

Macarisin, D., Wisniewski, M.E., Bassett, C.L., Thannhauser, T.W. 2009. Proteomic analysis of B-aminobutyric acid priming and aba-induction of drought resistance in crabapple (Malus pumila): effect on general metabolism, the phenylpropanoid pathway and cell wall enzymes. Plant Cell and Environment. 32: 1612-1631.

Aluminum induced proteome changes in tomato cotyledons - (Peer Reviewed Journal)

Zhou, S., Sauve, R., Thannhauser, T.W. 2009. Aluminum induced proteome changes in tomato cotyledons. Plant Signaling and Behavior. 4(8):769-772.

A broccoli COQ5 methyltransferase involved in ubiquinone biosynthesis mediates selenium volatilization - (Abstract Only)

Li, L., Zhou, X., Yang, Y., Thannhauser, T.W., Kochian, L.V. 2009. A broccoli COQ5 methyltransferase involved in ubiquinone biosynthesis mediates selenium volatilization. Meeting Abstract.

Protein N- and C-Termini Identification Using Mass Spectrometry and Isotopic Labeling - (Peer Reviewed Journal)

Xiang, B., Yang, X., Thannhauser, T.W. 2009. Protein N- and C-Termini Identification Using Mass Spectrometry and Isotopic Labeling. Journal of Rapid Communications in Mass Spectroscopy. 23:2102-2106.

A Comparison of Protein Extraction Methods Suitable for Gel-Based Proteomics Studies of Aphid Proteins - (Peer Reviewed Journal)

Cilia, M., Fish, T., Yang, X., Mclaughlin, M., Thannhauser, T.W., Gray, S.M. 2009. A Comparison of Protein Extraction Methods Suitable for Gel-Based Proteomics Studies of Aphid Proteins. Journal of Biomolecular Techniques. 20(4):201-215.

Salt Induced and Salt Suppressed Proteins in Tomato Leaves - (Peer Reviewed Journal)

Suping, Z., Zhou, S., Fish, T., Thannhauser, T.W. 2009. Salt Induced and Salt Suppressed Proteins in Tomato Leaves. Journal of the American Society for Horticultural Science. 134(2):289-294.

Proteome changes induced by aluminum stress in tomato roots - (Peer Reviewed Journal)

Zhou, S., Sauve, R., Thannhauser, T.W. 2009. Proteome changes induced by aluminum stress in tomato roots. Journal of Experimental Botany. 60:1849-1857.

Drosophila ABC Transporter DmHMT-1 Confers Tolerance to Cadmium. - (Peer Reviewed Journal)

Sooksa-Nguan, T., Yakubov, B., Kozlovskyy, V.I., Barcume, C.M., Thannhauser, T.W., Rutzke, M.A., Hart, J.J., Kochian, L.V., Vatamaniuk, O.K. 2009. Drosophila ABC Transporter DmHMT-1 Confers Tolerance to Cadmium. Journal of Biological Chemistry. 284:354-362.

Effects of Ascorbic Acid, Phytic Acid and Tannic Acid on Iron Bioavailability from Reconstituted Ferritin Measured by an In Vitro Digestion/Caco-2 Cell Model - (Peer Reviewed Journal)

Jin, F., Frohman, C., Glahn, R.P., Thannhauser, T.W., Welch, R.M. 2009. Effects of Ascorbic Acid, Phytic Acid and Tannic Acid on Iron Bioavailability from Reconstituted Ferritin Measured by an In Vitro Digestion/Caco-2 Cell Model. British Journal of Nutrition. 101(7):312-316.

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 - (Peer Reviewed Journal)

Alos, E., Roca, M., Iglesias, D., Minguez-Mosquera, M., Borges-Damasceno, C., Thannhauser, T.W., Campbell-Rose, J., Talon, M., Cercos, M. 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. Journal of Plant Physiology. 147:1300-1315.

ROLE OF COPPER,ZINC-SUPEROXIDE DISMUTASE IN CATALYZING NITROTYROSINE FORMATION IN MURINE LIVER - (Peer Reviewed Journal)

Zhu, J., Zhang, X., Roneker, C.A., Mcclung, J.P., Zhang, S., Thannhauser, T.W., Ripoll, D.R., Sun, Q., Lei, X. 2008. ROLE OF COPPER,ZINC-SUPEROXIDE DISMUTASE IN CATALYZING NITROTYROSINE FORMATION IN MURINE LIVER. Journal of Free Radical Biology and Medicine. 45:611-618.

PROTEOMIC ANALYSIS OF B-AMINOBUTYRIC ACID-PRIMED DROUGHT RESISTANCE IN CRABAPPLE SEEDLINGS - (Abstract Only)

Macarisin, D., Wisniewski, M.E., Bassett, C.L., Thannhauser, T.W. 2008. Proteomic analysis of b-aminobutyric acid-primed drought resistance in crabapple seedlings. Bio-Technology Fruit Symposium. Acta Hort. Book of Abstracts. 16:95.

Proteomic analysis of drought resistance in crabapple seedlings primed by the xenobiotic Beta-aminobutyric acid - (Abstract Only)

Macarisin, D., Wisniewski, M.E., Bassett, C.L., Thannhauser, T.W. 2008. Proteomic analysis of drought resistance in crabapple seedlings primed by the xenobiotic Beta-aminobutyric acid. Mid Atlantic Plant Molecular Biology Society Conference. Book of Abstracts Pg. 15-16.

Getting something for nothing: Regeneration of peptide signals from apparently exhausted MALDI samples by “waterboarding" - (Abstract Only)

Yang, X., Thannhauser, T.W. 2008. Getting something for nothing: Regeneration of peptide signals from apparently exhausted MALDI samples by “waterboarding". Journal of Biomolecular Techniques. Vol. 19:52.

Reproducibility of an Integrated Quantitation Method Coupling 2D GeLC-MS/MS with the emPAI for Comparative Proteomics - (Abstract Only)

Yang, Y., Zhang, S., Thannhauser, T.W. 2008. Reproducibility of an Integrated Quantitation Method Coupling 2D GeLC-MS/MS with the emPAI for Comparative Proteomics. Journal of Biomolecular Techniques. Vol. 19:52.

Characterization of Extracellular Proteins in Tomato Fruit using Lectin Affinity Chromatography and LC-MALDI-MS/MS analysis - (Abstract Only)

Hucko, S., Catala, C., Howe, K.J., Rose, J., Thannhauser, T.W. 2008. Characterization of Extracellular Proteins in Tomato Fruit using Lectin Affinity Chromatography and LC-MALDI-MS/MS analysis. Journal of Biomolecular Techniques. Vol. 19:57

Phytoene desaturase is present in a large protein complex in the plastid membrane - (Peer Reviewed Journal)

Lopez, A., Yang, Y., Thannhauser, T.W., Li, L. 2008. Phytoene desaturase is present in a large protein complex in the plastid membrane. Physiologia Plantarum. 133:190-198.

Coupling genetics and proteomics to identify aphid proteins associated with vector-specific transmission of Polerovirus (Luteoviridae) - (Peer Reviewed Journal)

Yang, X., Thannhauser, T.W., Burrows, M.E., Cox Foster, D., Gildow, F., Gray, S.M. 2008. Coupling genetics and proteomics to identify aphid proteins associated with vector-specific transmission of Polerovirus (Luteoviridae). Journal of Virology. 82:291-299.

A Comparison of nLC-ESI-MS/MS and nLC-MALDI-MS/MS for GeLC-based Protein Identification and iTRAQ-based Shotgun Quantitative Proteomics - (Peer Reviewed Journal)

Yang, Y., Howe, K.J., Zhang, S., Wilson, D., Moser, F., Irwin, D., Thannhauser, T.W. 2007. A comparison of nlc-esi-ms/ms and nlc-maldi-ms/ms for gelc-based protein identification and itraq-based shotgun quantitative proteomics. Journal of Biomolecular Techniques. 18:226-237.

Proteomic and metabolic analyses of early berry development in Vitis spp. including the period of ontogenic gain of resistance - (Abstract Only) - (01-May-07)

The call of the wild: using wild germplasm to uncover the basis for ontogenic resistance in grapevine (Vitis) - (Abstract Only) - (01-May-07)

On slide chemical modification as a means to improve confidence in protein identifications made by peptide mass finger prints - (Abstract Only)

Yang, X., Thannhauser, T.W. 2007. On slide chemical modification as a means to improve confidence in protein identifications made by peptide mass finger prints [abstract]. Journal of Biomolecular Techniques. 18:67.

A Comparison of nLC-ESI-MS/MS and nLC-MALDI-MS/MS for GeLC-based Protein Identification and iTRAQ-based Shotgun Quantitative Proteomics - (Abstract Only)

Yang, Y., Howe, K.J., Zhang, S., Thannhauser, T.W. 2007. A comparison of nlc-esi-ms/ms and nlc-maldi-ms/ms for gelc-based protein identification and itraq-based shotgun quantitative proteomics [abstract]. Journal of Biomolecular Techniques. 18:66.

Joint linkage-association analysis of aluminum tolerance in maize - (Abstract Only)

Hoekenga, O., Buckler Iv, E.S., Maron, L., Magalhaes, J., Kirst, M., Krill, A., Lyi, M., Rose, J., Thannhauser, T.W., Kochian, L.V. 2007. Joint linkage-association analysis of aluminum tolerance in maize [abstract]. Plant and Animal Genome VX Conference Abstracts. p. 55.

Development of an integrated approach for evaluation of 2-D gel image analysis: Impact of multiple proteins in single spots on comparative proteomics in conventional 2-D gel/MALDI workflow - (Peer Reviewed Journal)

Yang, Y., Thannhauser, T.W., Li, L., Zhang, S. 2007. Development of an integrated approach for evaluation of 2-D gel image analysis: Impact of multiple proteins in single spots on comparative proteomics in conventional 2-D gel/MALDI workflow. Electrophoresis. 28:2080-2094.

HIGH THROUGHPUT PROTEIN IDENTIFICATION USING 2-DIMENSIONAL DIFFERENCE GEL ELECTROPHORESIS AND ROBOTIC SPOT PICKING FOR ALUMINUM TOLERANCE-RELATED MAIZE ROOT TIP PROTEINS - (Abstract Only)

Thannhauser, T.W., Yang, Y., Zhang, S., Sherwood, R., Isaac, I. 2006. High throughput protein identification using 2-dimensional difference gel electrophoresis and robotic spot picking for aluminum tolerance-related maize root tip proteins. Journal of American Society for Mass Spectrometry. 17:46.

ITRAQ BASED PROTEIN QUANTITATIVE ANALYSIS OF THE CELL WALL PROTEOME OF PATHOGEN-INFECTED TOMATO LEAVES - (Abstract Only)

Thannhauser, T.W., Yang, Y., Zhang, S., Damasceno, C., Sherwood, R., Rose, J. 2006. Itraq based protein quantitative analysis of the cell wall proteome of pathogen-infected tomato leaves. Journal of Biomolecular Techniques. 17:40.

COMPARISON OF PROTEIN IDENTIFICATION BY MALDI-TOF/TOF AND LC ELECTROSPRAY IONIZATION TANDEM MS FOR 2D GEL SEPARATED CAULIFLOWER SAMPLES - (Abstract Only)

Thannhauser, T.W., Yang, Y., Zhang, S. 2006. Comparison of protein identification by maldi-tof/tof and lc electrospray ionization tandem ms for 2d gel separated cauliflower samples. Journal of Biomolecular Techniques. 17:48.

PROTEINS IN THE APHID SCHIZAPHIS GRAMINUM ASSOCIATED WITH VECTORING LUTEOVIRUSES - (Abstract Only)

Thannhauser, T.W., Yang, X., Gray, S.M., Burrows, M.E., Cox-Foster, D., Gildow, F. 2006. Proteins in the aphid schizaphis graminum associated with vectoring luteoviruses. Phytopathology. 96:S127.

INTERDISCIPLINARY ANALYSIS OF ALUMINUM TOLERANCE IN MAIZE - (Abstract Only)

Hoekenga, O., Buckler Iv, E.S., Maron, L., Magalhaes, J., Isaacson, T., Kirst, M., Krill, A., Lyi, S.M., Rose, J., Thannhauser, T.W., Kochian, L.V. 2006. Interdisciplinary analysis of aluminum tolerance in maize [abstract]. Plant and Animal Genome VX Conference Abstracts. p. 226.

OR, A PLASTID PROTEIN, ACCOUNTS FOR THE HIGH LEVEL ACCUMULATION OF BETA-CAROTENE IN CAULIFLOWER - (Abstract Only)

Lu, S., O'Halloran, D.M., Cosman, K., Yang, Y., Xiang, B., Thannhauser, T.W., Li, L. 2005. Or, a plastid protein, accounts for the high level accumulation of beta-carotene in cauliflower. American Society of Plant Biologists Annual Meeting. p. 606.

DIFFERENTIAL PROTEIN EXPRESSION IN BRASSICA OLERACIA: CHANGES ASSOCIATED WITH THE ABILITY TO ACCUMULATE HIGH CONCENTRATIONS OF B-CAROTENE - (Abstract Only)

Thannhauser, T.W., Yang, Y., Xiang, B., Lu, S., Li, L. 2005. Differential protein expression in brassica oleracia: changes associated with the ability to accumulate high concentrations of b-carotene [abstract]. Journal of Biomolecular Techniques. 16:60.