Progress 07/01/06 to 07/14/09
Outputs
OUTPUTS: The aim of this proposal was to bring to the University of Kentucky College of Agriculture the capabilities for, and a strong track record in, modern high-throughput genetic technologies, and to enhance prospects to leverage nationally competitive extramural grant support in these important areas of agricultural research. The capacity of the University of Kentucky Advanced Genetic Technologies Center was increased by 50% with the installation of a 48-capillary electrophoresis unit for DNA sequence analysis, and a liquid handling robot. Four pilot projects were conducted to study plant and microbial genome structure and expression. Pilot projects led to major grants in ecological genomics ($2.3 million over 5 years) and phylogenomics ($1.4 million over 5 years). Numerous new DNA sequencing projects were initiated, as well as a DNA fragment analysis project. Fourteen undergraduate interns were introduced to genomic and high-throughput genetic technologies, two of whom received the prestigious Beckman scholarships for their work. PARTICIPANTS: P.I.: Schardl, Christopher L. Professor, University of Kentucky. Adams, Kandi, Undergraduate Student, University of Kentucky. Polymerase chain reactions, DNA sequence analysis. Arnaoudova, Elissaveta, PhD Student, University of Kentucky. Genome and unigene assembly, gene model construction, genome annotation. Birkenhauer, Thomas J., Undergraduate Student, University of Kentucky. Polymerase chain reactions, DNA sequence analysis.. Bonilla, Tracy, Undergraduate Student, University of Kentucky. DNA isolation and quality control, DNA sequence analysis Bullock, Charles Thomas, Undergraduate Student, University of Kentucky. Laboratory Information Management Systems. Calder, James O., Postbaccalaureate, University of Kentucky. DNA sequence analysis. Carmichael, Emily, Undergraduate Student, Eastern Kentucky University. Polymerase chain reactions, DNA sequence analysis. Caswell, Arnold, W., Undergraduate Student, University of Kentucky. Polymerase chain reactions, DNA sequence analysis. Gayheart, Dustin T., Undergraduate student, University of Kentucky. Genomic DNA clone library construction. Gill, Love, MS Student, University of Kentucky. DNA isolation and quality control, DNA sequence analysis. Gue, R. Shmay, Undergraduate student, University of Kentucky. Polymerase chain reactions, DNA sequence analysis. Harding, Ellen Walker, Technician, University of Kentucky. Sanger DNA sequencing. Holcomb, Nathaniel, Undergraduate student, University of Kentucky, Polymerase chain reactions, DNA sequence analysis. Kaser, Joseph, PhD Student, Oregon State University, Sequence analysis and phylogenetics. Kesterson, Abbe, Senior Facilities Manager, University of Kentucky, Next generation sequencing. Mann, Lesley J., Undergraduate Student, University of Kentucky. Quantitative reverse-transcription polymerase chain reactions. DNA cloning. Gene expression studies. Ms Mann received a Beckman scholarship for her project. Porter, Joseph C., Undergraduate, Eastern Kentucky University, Polymerase chain reactions, DNA sequence analysis. Schweri, Kathryn K., Undergraduate Student, University of Kentucky. Polymerase chain reactions, DNA isolation and quality control, DNA sequence analysis. Received a Beckman Scholarship for her project. Sugawara, Koya, Visiting scholar from NARO, Japan, Polymerase chain reactions, DNA sequence analysis. Wagner, Dianna R., Undergraduate, Eastern Kentucky University, Polymerase chain reactions, DNA sequence analysis. Webb, Jennifer, Research Analyst, University of Kentucky, Robotic programming, DNA sequence analysis, DNA fragment analysis. Laboratory management. Williams, Latasha S., Undergraduate, University of Kentucky, Polymerase chain reactions and DNA sequence analysis. TARGET AUDIENCES: Farmers and livestock producers. Agricultural biotechnology companies. PROJECT MODIFICATIONS: Nothing significant to report during this reporting period.
Impacts
Agricultural productivity depends on the genetic potential of the crops and livestock, and their interactions with the agro-ecosystem. The results of this project have enhanced techniques of genetic analysis, and through such techniques, increased understanding of plant genes, fungal symbionts of plants, bacterial pathogens of livestock, and bacterial consortia in the soil environment. The increased capacity and capabilities of the facility now make feasible genome sequencing for numerous microorganisms that are pathogenic or symbiotic with agricultural plants and livestock, and also will allow metagenomic studies of agricultural and sensitive environments. The data obtained in pilot projects are being used to leverage major competitive grants.
Publications
- No publications reported this period
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Progress 07/01/07 to 06/30/08
Outputs
OUTPUTS: The aim of this proposal is to bring to the University of Kentucky College of Agriculture the capabilities for, and a strong track record in, modern high-throughput genetic technologies, and to enhance prospects to leverage nationally competitive extramural grant support in these important areas of agricultural research. Pilot projects led to major grants in ecological genomics ($2.3 million over 5 years) and phylogenomics ($1.4 million over 5 years). Numerous new DNA sequencing projects were initiated, as well as a DNA fragment analysis project. Four undergraduate interns were introduced to genomic and high-throughput genetic technologies. One of these received the prestigious Beckman scholarship for this work. PARTICIPANTS: Mann, Lesley J., Undergraduate Student, University of Kentucky, Quantitative reverse-transcription polymerase chain reactions. DNA cloning. Gene expression studies. Ms Mann received a Beckman scholarship for this work. Kesterson, Abbe, Senior Facilities Manager, Next generation sequencing. Webb, Jennifer, Research Analyst, Robotic programming, DNA sequence analysis, DNA fragment analysis. Laboratory management. Sugawara, Koya, Sabbatical visitor from NARO, Japan, Polymerase chain reactions, DNA sequence analysis. Arnaoudova, Elissaveta, PhD Student, University of Kentucky, Genome and unigene assembly, gene model construction, genome annotation. Bullock, Charles Thomas, Undergraduate Student, University of Kentucky, Laboratory Information Management Systems. Calder, James O., Postbaccalaureate, University of Kentucky, DNA sequence analysis. Harding, Ellen Walker, Technician. Sanger DNA sequencing. Caswell, Arnold, W., Undergraduate Student, University of Kentucky, Polymerase chain reactions, DNA sequence analysis. Carmichael, Emily, Undergraduate Student, Eastern Kentucky University, Polymerase chain reactions, DNA sequence analysis. Kaser, Joseph, PhD Student, Oregon State University, Sequence analysis and phylogenetics. TARGET AUDIENCES: Farmers and livestock producers. Agricultural biotechnology companies. PROJECT MODIFICATIONS: Nothing significant to report during this reporting period.
Impacts
Agricultural productivity depends on the genetic potential of the crops and livestock, and their interactions with the agro-ecosystem. The results of this project have enhanced techniques of genetic analysis, and through such techniques, increased understanding of plant genes, fungal symbionts of plants, bacterial pathogens of livestock, and bacterial consortia in the soil environment. The increased capacity and capabilities of the facility now make feasible genome sequencing for numerous microorganisms that are pathogenic or symbiotic with agricultural plants and livestock, and also will allow metagenomic studies of agricultural and sensitive environments. The data obtained in pilot projects are being used to leverage major competitive grants.
Publications
- Lee, S. and Chappell, J. ( 2008) Biochemical and genomic characterization of terpene synthases in Magnolia grandiflora. Plant Physiology 147: 1017-1033.
- Li, Z., Barajas, D., Panavas, T., Herbst, D.A., and Nagy, P.D. (2008) Cdc34p ubiquitin-conjugating enzyme is a component of the tombusvirus replicase complex and ubiquitinates p33 replication protein. Journal of Virology 82: 6911-6926.
- Zhang, D., and Howe, D.K. (2008) Investigation of SnSPR1, a novel and abundant surface protein of Sarcocystis neurona merozoites. Veterinary Parasitology 152:210-219.
- Zhang, J., Addepalli, B., Yun, K.Y., Hunt, A.G., Xu, R., Rao, S., Li, Q.Q., and Falcone, D.F. (2008) A polyadenylation factor subunit implicated in regulating oxidative signaling in Arabidopsis thaliana. PLoS One 3, e2410.
- Betts, M.F., Tucker, S.L., Galadima, N., Meng, Y., Patel, G., Li, L., Donofrio, N., Floyd, A., Nolin, S., Brown, D., Mandel, M.A., Mitchell, T.K., Xu, J.-R., Dean, R.A., Farman, M.L. and Orbach, M.J. (2007) Development of a high throughput transformation system for insertional mutagenesis in Magnaporthe oryzae. Fungal Genetics and Biology 44: 1035-1049.
- Chakrabarty, R., Banerjee, R., Chung, S. M., Farman, M., Citovsky, V., Tzfira, T., and Goodin, M. (2007) pSITE vectors for stable integration or transient expression of autofluorescent protein fusions in plants: probing Nicotiana benthamiana-virus interactions. Molecular Plant-Microbe Interactions 20: 740-750.
- Chanda, B., Venugopal, S.C., Kulshrestha, S., Navarre, D., Downie, B., Vaillancourt, L., Kachroo, A., Kachroo, P. (2008) Glycerol-3-phosphate levels are associated with basal resistance to the hemibiotrophic fungus Colletotrichum higginsianum in Arabidopsis. Plant Physiology 147: 2017-2029
- de Sa, P.B., Seebold, K.W., and Vincelli, P. (2008) First Report of tomato yellow leaf curl virus in greenhouse tomatoes in Kentucky. Online. Plant Health Progress doi:10.1094/PHP-2008-0819-01-RS.
- Farman, M. (2007) Telomeres in the rice blast fungus Magnaporthe oryzae: The world of the end as we know it. FEMS Microbiology Letters 273: 125-132.
- Farman, M., and Kim, Y.-S. (2005) Telomere hypervariability in Magnaporthe oryzae. Molecular Plant Pathology 6: 287-298.
- Hildebrand, D., Li, R., and Hatanaka, T. (2008) Genomics of soybean oil traits. In Soybean Genomics, G. Stacey, ed. (In Press).
- Adank, K.M., Barton, C.D., French, M.E. and de Sa, P.B. (2008) Survey of Phytophthora on Reforested Loose-Graded Spoils in Eastern Kentucky. 2008 National Meeting of the American Society of Mining and Reclamation, Richmond VA. New Opportunities to Apply Our Science. R.I. Barnhisel (Ed.) ASMR.
- Hilker, B.L., Fukushige, H., Hou, C. and Hildebrand, D. (2008) Comparison of Bacillus monooxygenase genes for unique fatty acid production. Progress in Lipid Research 47: 1-14.
- Hilker, B.L., Fukushige, H., Hou, C. and Hildebrand, D. (2008) Some properties of a self-sufficient cytochrome P-450 from Bacillus megaterium strain ALA2. In Biocatalysis and Bioenergy, C.T. Hou, and J.F. Shaw, eds., John Wiley & Sons (In press).
- Hill, K., Wang, H. and Perry, S.E. (2007). A transcriptional repression motif in the MADS factor AGL15 is involved in recruitment of histone deacetylase complex components. Plant Journal 53: 172-185.
- Kurepa, J., Toh-e, A., and Smalle, J.A. (2008) 26S proteasome regulatory particle mutants have increased oxidative stress tolerance. Plant Journal, 53: 102-114.
- Jeong, R.D., Chandra-Shekara, A.C., Kachroo, A., Klessig, D., Kachroo, P. (2008) HRT-mediated hypersensitive response and resistance to Turnip Crinkle Virus in Arabidopsis does not require the function of TIP, the presumed guardee protein. Molecular Plant-Microbe Interactions 21: 1316-1324.
- Kang, H.-G., Kuh,l J.C., Kachroo, P., Klessig, D.F. (2008) Turnip Crinkle Virus resistance in Arabidopsis requires CRT1, a new member of GHKL ATPase family. Cell-Host and Microbe 3: 48-57.
- Addepalli, B., Hunt, A.G. (2008) The interaction between two Arabidopsis polyadenylation factor subunits involves an evolutionarily-conserved motif and has implications for the assembly and function of the polyadenylation complex. Protein Peptide Letters 15: 76-88.
- Allen, G.P., Bolin, D.C., Bryant, U., Carter, C.N., Giles, R.C., Harrison, L.R., Hong, C.B., Jackson, C.B., Poonacha, K., Wharton, R., and Williams, N.M. (2008) Prevalence of latent, neuropathogenic equine herpesvirus-1 in the Thoroughbred broodmare population of central Kentucky. Equine Veterinary Journal 40: 105-110.
- Korenkov, V., Park, S., Cheng, N.H., Sreevidya, C., Lachmansingh, J., Morris, J., Hirschi, K., and Wagner, G.J. (2007) Enhanced Cd-selective root-tonoplast-transport in tobaccos expressing Arabidopsis cation exchangers. Planta 225: 403-411.
- Kroumova, A.B., Shepherd, R.W., and Wagner, G.J. (2007) Impacts of T-phylloplanin gene knockdown and of Heilanthus and Datura phylloplanins on Peronospora tabacina spore germination and disease potential. Plant Physiology 144: 1843-1851.
- Meng, Y., Patel, G., Heist, M., Betts, M.F., Tucker, S., Galadima, N., Donofrio, N., Brown, D., Mitchell, T., Li, L., Xu, J. R., Orbach, M., Thon, M., Dean, R., and Farman, M. (2007) A systematic analysis of T DNA insertions in Magnaporthe oryzae. Fungal Genetics and Biology 44: 1050-1064.
- Monkewich, S., Lin, H.-X., Fabian, M.R., Xu, W., Na, H., Ray, D., Chernysheva, O.A., Nagy, P.D. and White, K.A. (2005) p92 polymerase coding region contains an internal rna element required at an early step in Tombusvirus genome replication. Journal of Virology, 79: 4848-4858.
- Nagy, P.D. (2008) Yeast as a Model Host to Explore Plant Virus-Host Interactions. Annual Review of Phytopathology 46: 217-242.
- Nagy, P.D., and Pogany, J. (2008) Multiple roles of viral replication proteins in plant RNA virus replication. Methods in Molecular Biology 451: 55-68.
- Nagy, P.D., and Pogany, J. (2006) Yeast as a model host to dissect functions of viral and host factors in tombusvirus replication. Virology 344: 211-220.
- Panavas, T., Serviene, E., Pogany, J., and Nagy, P.D. (2008) Genome-wide screens for identification of host factors in viral replication. Methods in Molecular Biology 451: 615-624.
- Panguluri, S.K., Li, B., Hormann, R.E., and Palli, S.R. (2007) Effect of ecdysone receptor gene switch ligands on endogenous gene expression in 293 cells. FEBS Journal 274: 5669-5689.
- Parthasarathy, R., and Palli, S.R. (2008) Proliferation and differentiation of intestinal stem cells during metamorphosis of the red flour beetle, Tribolium castaneum Developmental Dynamics 237: 893-908.
- Parthasarathy, R., Tan, A., Bai, H., and Palli, S.R. (2008) Transcription factor broad suppresses precocious development of adult structures during larval-pupal metamorphosis in the red flour beetle, Tribolium castaneum. Mechanisms of Development 125: 299-313.
- Pathak, K.B., Sasvari, Z., and Nagy, P.D. (2008). The host Pex19p plays a role in peroxisomal localization of tombusvirus replication proteins. Virology 30: 294-305
- Pogany, J., and Nagy, P.D. (2008) Authentic replication and recombination of Tomato bushy stunt virus RNA in a cell-free extract from yeast. Journal of Virology 82: 5967-5980.
- Rajendran, K.S., and Nagy, P.D. (2008) Surface plasmon resonance analysis of interactions between replicase proteins of tomato bushy stunt virus. Methods in Molecular Biology 451:267-277.
- Rao. S., Taha, M., and Hildebrand, D., (2008) Characteristics of High [alpha]-linolenic acid accumulation in seed oils, Lipids 43: 749-755.
- Schardl, C.L., Craven, K.D., Speakman, S., Stromberg, A., Lindstrom, A., Yoshida, R. (2008) A novel test for host-symbiont codivergence indicates ancient origin of fungal endophytes in grasses. Systematic Biology 57: 483-498.
- Sharkey, M.J. (2007) Phylogeny and classification of Hymenoptera. pp. 521-548. In: Z.-Q. Zhang and W.A. Shear, eds., Linnaeus tercentenary: progress in invertebrate taxonomy. Zootaxa 1668: 1-766.
- Shepherd, R.W., and Wagner, G.J. (2007) Phylloplane proteins: emerging defenses at the aerial frontline Trends in Plant Sciences 12: 51-56.
- Spiering, M.J., Faulkner, J.R., Machado, C., Zhang, D.-X., Grossman, R.B., Schardl, C.L. (2008) Role of the LolP cytochrome P450 in biosynthesis of N-formylloline. Fungal Genetics and Biology 45: 1307-1314.
- Tan, A., and Palli, S.R. (2008) Edysone receptor isoforms play distinct roles in controlling molting and metamorphosis in the red flour beetle, Tribolium castaneum Molecular and Cellular Endocrinology 291: 42-49.
- Tan, A., and Palli, S.R. (2008) Identification and characterization of nuclear receptors from the red flour beetle, Tribolium castaneum. Insect Biochemistry and Molecular Biology 38: 430-439.
- Tavva, V.S., Palli, S.R., Dinkins, R.D., Collins, G.B. (2008) Improvement of a monopartite ecdysone receptor gene switch and demonstration of its utility in regulation of transgene expression in plants. FEBS Journal 275: 2161-2176.
- Thakare, D., Tang, W., Hill, K., and Perry, S.E .(2008) The MADS-domain transcriptional regulator AGAMOUS-LIKE15 promotes somatic embryo development in Arabidopsis and soybean. Plant Physiology 146: 1663-1672.
- Timoney, J.F., Yang, J., Liu, J., and Merant, C., (2008) IdeE reduces the bactericidal activity of equine neutrophils for Streptococcus equi. Veterinary Immunology and Immunopathology 122: 76-82.
- Venard, C., Kulshrestha, S., Sweigard, J., Nuckles, E., and Vaillancourt, L. (2008). The role of a FadA orthologue in the growth and development of Colletotrichum graminicola in vitro and in planta. Fungal Genetics and Biology 45: 973-983.
- Vincelli, P., and Tisserat, N. (2008) Nucleic acid-based pathogen detection in applied plant pathology. Plant Disease 92:660-669.
- Wang, R.Y., and Nagy, P.D. (2008) Tomato bushy stunt virus co-opts the RNA-binding function of a host metabolic enzyme for viral genomic RNA synthesis. Cell Host & Microbe 3: 178-187.
- Wensui, L., and D'Angelo, E.M. (2008) Organic carbon effects on aerobic polychlorinated biphenyl removal and bacterial community composition in soils and sediments. Chemosphere 70: 364-373.
- Wensui, L., and D'Angelo, E.M. (2007) Plant secondary metabolites, biphenyl, and hydroxypropyl-β-cyclodextrin effects on aerobic polychlorinated biphenyl removal and microbial population structure in soils. Soil Biology and Biochemistry 39: 735-743.
- Yu, K., Li, R., Hatanaka, T., and Hildebrand, D. (2008) Cloning and functional analysis of two type 1 diacylglycerol acyltransferases from Vernonia galamensis, Phytochemistry 69:1119-1127.
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Progress 07/01/06 to 06/30/07
Outputs
OUTPUTS: The aim of this proposal is to bring to the University of Kentucky College of Agriculture the capabilities for, and a strong track record in, modern high-throughput genetic technologies, and to enhance prospects to leverage nationally competitive extramural grant support in these important areas of agricultural research. The capacity of the University of Kentucky Advanced Genetic Technologies Center was further increased the installation of a second liquid handling robot, which, coupled with the new capillary electrophoresis unit purchased the previous year, facilitated rapid DNA sequencing of large numbers of samples. Four pilot projects were conducted to study plant and microbial genome structure and expression. Six undergraduate interns were introduced to genomic and high-throughput genetic technologies.
PARTICIPANTS: Webb, Jennifer, Robotic programming, DNA sequence analysis, DNA fragment analysis. Laboratory management. Calder, James O., DNA sequence analysis Johnson, Erin, Polymerase chain reactions, DNA sequence analysis Mann, Lesley J., Quantitative reverse-transcription polymerase chain reactions Adams, Kandi, Polymerase chain reactions, DNA sequence analysis Bonilla, Tracy, DNA isolation and quality control, DNA sequence analysis Porter, Joseph C., Polymerase chain reactions, DNA sequence analysis Wagner, Dianna R., Polymerase chain reactions, DNA sequence analysis Arnold, W. Caswell, Polymerase chain reactions, DNA sequence analysis Holcomb, Nathaniel, Polymerase chain reactions, DNA sequence analysis Gayheart, Dustin T., Genomic DNA clone library construction. Birkenhauer, Thomas J., Polymerase chain reactions, DNA sequence analysis Gill, Love, DNA isolation and quality control, DNA sequence analysis Gue, R. Shmay, Polymerase chain reactions, DNA sequence analysis Schweri,
Kathryn K., Polymerase chain reactions, DNA isolation and quality control, DNA sequence analysis, Williams, Latasha S. , Polymerase chain reactions
TARGET AUDIENCES: Farmers and livestock producers. Agricultural biotechnology companies.
PROJECT MODIFICATIONS: none
Impacts
Agricultural productivity depends on the genetic potential of the crops and livestock, and their interactions with the agro-ecosystem. The results of this project have enhanced techniques of genetic analysis, and through such techniques, increased understanding of plant genes, fungal symbionts of plants, bacterial pathogens of livestock, and bacterial consortia in the soil environment. The increased capacity and capabilities of the facility now make feasible genome sequencing for numerous microorganisms that are pathogenic or symbiotic with agricultural plants and livestock, and also will allow metagenomic studies of agricultural and sensitive environments. The data obtained in pilot projects are being used in proposals for competitive grants.
Publications
- Greenhagen B.T., O'Maille, P.E., Noel, J.P., and Chappell, J. 2006. Identifying and manipulating structural determinates linking catalytic specificities in terpene synthases. Proceedings of the National Academy of Sciences of the United States of America 103: 9826-9831.
- Gu, H., Zhang, C. and Ghabrial, S.A. 2007. Novel naturally occurring Bean pod mottle virus reassortants with mixed heterologous RNA1 genomes. Phytopathology 97: 79-86.
- Hildebrand, D. 2007. Biotechnology and Crop Improvement in Agriculture. In: . Weselake (ed.), Teaching Innovations in Lipid Science. Taylor & Francis, N.Y.,
- Jaag, H.M., Stork, J., and Nagy, P.D. 2007. Host transcription factor Rpb11p affects tombusvirus replication and recombination via regulating the accumulation of viral replication proteins. Virology 368(2): 388-404.
- Jiang, Y., Serviene, E., Gal, J., Panavas, T., and Nagy, P.D. 2006. Identification of essential host factors affecting tombusvirus RNA replication based on the yeast Tet promoters Hughes collection. Journal of Virology 80(15): 7394-7404.
- Jonczyk, M., Pathak, K.B., Sharma, M., and Nagy, P.D. 2007. Exploiting alternative subcellular location for replication: Tombusvirus replication switches to the endoplasmic reticulum in the absence of peroxisomes. Virology 362(2): 320-330.
- Allen, G.P. 2006. Antemortem detection of horses latently infected with neuropathogenic strains of equine herpesvirus-1. American Journal of Veterinary Research 67: 1401-1405.
- Bai, H., Parthasarathy, R., and Palli, S.R. 2007. Identification and characterization of juvenile hormone esterase gene from the yellow fever mosquito, Aedes aegypti. Insect Biochemistry and Molecular Biology 37(8): 829-837.
- Caston, J.R., Luque, D., Trus, B. l., Rivas, G., Alfonso, C., Roca, R., Gonzalez, J. M, Carrascosa, J. L., Annamalai, P. and Ghabrial, S. A. 2006. Three-dimensional structure and stoichiometry of Helminthosporium victoriae 190S totivirus. Virology 347: 323-332.
- Chandra-Shekara, A.C, Gupte, M., Navarre D.A., Raina, R., Klessig D.F., Kachroo, P. 2006. Light-dependent hypersensitive response and resistance signaling against the Turnip Crinkle Virus in Arabidopsis. The Plant Journal 45: 320-335.
- Chandra-Shekara, A.C, Venugopal, S.C., Barman, S.R., Kachroo, A., Kachroo, P. 2007. Plastidial fatty acid levels regulate resistance gene-dependent defense signaling in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America 104: 7277-7282.
- Cheng, C.P., Jaag, H.M., Jonczyk, M., Serviene, E., and Nagy, P.D. 2007. Expression of the Arabidopsis Xrn4p 5 '-3 ' exoribonuclease facilitates degradation of tombusvirus RNA and promotes rapid emergence of viral variants in plants. Virology 368(2): 238-248.
- Sharkey, M.J., Laurenne, N.M., Sharanowski, B., Quicke, D.L.J., and Murray, D. 2006. Revision of the Agathidinae with comparisons of static and dynamic alignments (Hymenoptera: Braconidae). Cladistics 22: 546-567
- Sullivan, T.J., Rodstrom, J., Vandop, J., Librizzi, J., Graham, C., Schardl, C.L., and Bultman, T.L. 2007. Symbiont-mediated changes in Lolium arundinaceum inducible defenses: evidence from changes in gene expression and leaf composition. New Phytologist 176: 673-679.
- Takahashi, S, Yeo Y., Greenhagen B.T., Song L., Maurina-Brunker J., Rosson R., Noel J.P., and Chappell, J. 2007. Metabolic engineering of sesquiterpene metabolism in yeast. Biotechnology and Bioengineering. 97: 170-181.
- Takahashi, S, Yeo Y., Zhao, Y., O'Maille, P.E., Greenhagen, B.T., Noel, J.P. Coates, R.M., and Chappell, J. 2007. Functional characterization of premnaspirodiene oxygenase, a cytochrome P450 catalyzing regio- and stereo-specific hydroxylations of diverse sesquiterpene substrates. Journal of Biological Chemistry 282: 31744-31754.
- Timoney, J.F., Qin, A., Muthupalani, S., and Artiushin, S. 2007. Vaccine potential of novel surface exposed and secreted proteins of Streptococcus equi. Vaccine. 25: 5583-5590.
- Tiwari, R., Artiushin, S., and Timoney, J.F. 2006. P9, a temperate bacteriophage of Streptococcus equi. In K.S. Sriprakash (ed.) Streptococci - New Insights into an Old Enemy. International Congress Series 1289, Elsevier, The Netherlands. p. 165-168
- Tiwari, R., Qin, A., Artiushin, S., and Timoney, J.F. 2007. Se18.9 an anti-phagocytic factor H binding protein of Streptococcus equi. Veterinary Microbiology 121: 105-115.
- Venard, C., and Vaillancourt, L. 2007. Colonization of fiber cells by Colletotrichum graminicola in wounded maize stalks. Phytopathogy 97: 438-447.
- Venard, C., and Vaillancourt, L. 2007. Penetration and colonization of unwounded maize tissues by the maize anthracnose pathogen Colletotrichum graminicola, and by the related non-pathogen C. sublineolum. Mycologia 99: 368-377.
- Mendu V., and Hildebrand, D.F. 2007. Plant Hydroperoxide Lyases and Related Enzymes. Chapt. 24 In: C. Hou (ed.) Biocatalysis and Biotechnology for Functional Foods and Industrial Products. Taylor & Francis, N.Y., p. 399-417.
- Kachroo, A., Shanklin, J., Lapchyk, L., Whittle, E., Hildebrand, D., Kachroo, P. 2007. The Arabidopsis stearoyl-acyl carrier protein-desaturase family and the contribution of leaf isoforms to oleic acid synthesis. Plant Molecular Biology 63: 257-271.
- Kutil, B.L., Greenwald, C., Liu, G., Spiering, M.J., Schardl, C.L., and Wilkinson H.H. 2007. Comparison of loline alkaloid gene clusters across fungal endophytes: Predicting the co-regulatory sequence motifs and the evolutionary history. Fungal Genetics and Biology 44: 1002-1010.
- Li, Y., Robinson, G.E., and Palli, S.R. 2007. Identification and Characterization of DmJHRE. Journal of Biological Chemistry 282(52): 37605-37617.
- Lorenz, N., Wilson, E.V., Machado, C., Schardl, C., and Tudzynski, P. 2007. Comparison of ergot alkaloid biosynthesis gene clusters in Claviceps species indicate loss of late pathway steps in evolution of C. fusiformis. Applied and Environmental Microbiology 73(22): 7185-7191.
- Moon, C.D., Guillaumin, J.-J., Ravel, C., Li, C., Craven, K.D. and Schardl, C.L. 2007. New Neotyphodium endophyte species from the grass tribes Stipeae and Meliceae. Mycologia 99:895-905.
- Panavas, T., Stork, J., and Nagy, P. D. 2006. Use of double-stranded RNA templates by the tombusvirus replicase in vitro: Implications for the mechanism of plus-strand initiation. Virology 352(1): 110-120.
- Parthasarathy, R., and Palli, S.R. 2007. Developmental and hormonal regulation of midgut remodeling in a lepidopteran insect, Heliothis virescens. Mechanisms of Development 124: 23-34.
- Parthasarathy, R., and Palli, S.R. 2007. Stage- and cell-specific expression of ecdysone receptors and ecdysone-induced transcription factors during midgut remodeling in the yellow fever mosquito, Aedes aegypti. Journal of Insect Physiology 53: 216-229.
- Schardl, C.L., Grossman, R.B., Nagabhyru, P., Faulkner, J.R., and Mallik, U.P. 2007. Loline alkaloids: currencies of mutualism. Phytochemistry 68: 980-996.
- Selosse, M.A., and Schardl, C.L. 2007. Fungal endophytes of grasses: hybrids rescued by vertical transmission? An evolutionary perspective. New Phytologist 173: 452-458.
- Wang, E., Dimova, and N., Cambi, F. 2007. PLP/DM20 ratio is regulated by hnRNPH and F and a novel G-rich enhancer in oligodendrocytes. Nucleic Acids Research 35(12): 4164-78.
- Wang, R.Y., Kritzman, A. Hershman, D.E., and Ghabrial, S.A. 2006. Aphis glycines as a vector of persistently and nonpersistently transmitted viruses and potential risks for soybean and other crops. Plant Disease 90: 920-926.
- Wu, S., Schalk, M., Clark, A., Miles, R.B., Coates, R.M., and Chappell, J. 2006. Redirection of cytosolic or plastidic isoprenoid precursors elevates terpene production in plants. Nature Biotechonlogy 24: 1441-1447.
- Wu, S., Schoenbeck, M.A., Greenhagen, B.T., Takahashi, S., Lee, S.B., Coates, R.M. and Chappell, J. 2005. Surrogate splicing for functional analysis of sesquiterpene synthase genes. Plant Physiology 138: 1322-1333.
- Xie, J., Wei, D., Jiang, D., Fu, Y., Li, G., Ghabrial, S., and Yi, X. 2006. Characterization of debilitation-associated mycovirus infecting the plant pathogenic fungus Sclerotinia sclerotiorum. Journal of General Virology 87: 241-249.
- Yu, K., McCracken, C.T., Jr., Li, R., and Hildebrand, D. 2006. Diacylglycerol acyltransferases from Vernonia and Stokesia prefer substrates with vernolic acid. Lipids 41: 557-566.
- Zhao, T., Havens, W.M., and Ghabrial, S.A. 2006. The disease phenotype of virus-infected Helminthosporium victoriae is independent of overexpression of the cellular alcohol oxidase/RNA-binding protein Hv-p68. Phytopathology 96: 326-332.
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