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                    U.S. DEPARTMENT OF AGRICULTURE
 Plant Gene Expression Center: Albany, CA
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ARS Home Pacific West Area Albany, California Plant Gene Expression Center People & Locations







Frank  Harmon
                        Plant Gene Expression Center

                        




                        
                        Research Molecular Biologist
                        Phone: (510) 559-5939
                        
                        
                        Fax: (510) 559-5678(Employee information on this page comes from the REE Directory. Please contact your front office staff to update the REE Directory.)
                            ProjectsDevelopmental and Environmental Control Mechanisms to Enhance Plant Productivity
                                                    In-House Appropriated
                                                                    (D)Accession Number: 444712Regulatory Mechanisms Controlling Plant Development, Biotic and Abiotic Stress Responses, and Microbiome Interactions
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 440675**Publications**
                                                (Clicking on the reprint icon
                                                    Reprint Icon
                                                    will take you to the publication reprint.)Unique and overlapping functions for the transcriptional regulators KANADI1 and ULTRAPETALA1 in Arabidopsis gynoecium and stamen gene regulation
                                                        

- (Peer Reviewed Journal)Hagelthorn, L., Monfared, M.M., Talo, A., Harmon, F.G., Fletcher, J.C. 2023. Unique and overlapping functions for the transcriptional regulators KANADI1 and ULTRAPETALA1 in Arabidopsis gynoecium and stamen gene regulation. Plant Direct. 7(5). Article 7:e496. https://doi.org/10.1002/pld3.496.Impact of the sickle mutant and temperature on the structure of transcripts and RNAs from Arabidopsis thaliana
                                                        

- (Peer Reviewed Journal)Marshall, C.M., Harmon, F.G. 2022. Impact of the sickle mutant and temperature on the structure of transcripts and RNAs from Arabidopsis thaliana. BMC Research Notes. 15. Article 110. https://doi.org/10.1186/s13104-022-05963-y.72-hour diurnal RNA-seq analysis of fully expanded third leaves from maize, sorghum, and foxtail millet at 3-hour resolution
                                                        

- (Peer Reviewed Journal)Lai, X., Bendix, C., Zhang, Y., Schnable, J.C., Harmon, F.G. 2021. 72-hour diurnal RNA-seq analysis of fully expanded third leaves from maize, sorghum, and foxtail millet at 3-hour resolution. BMC Research Notes. 14. Article 24. https://doi.org/10.1186/s13104-020-05431-5.A sorghum gigantea mutant attenuates florigen gene expression and delays flowering time
                                                        

- (Peer Reviewed Journal)Abdul-Awal, S., Chen, J., Xin, Z., Harmon, F.G. 2020. A sorghum gigantea mutant attenuates florigen gene expression and delays flowering time. Plant Direct. 4(11). Article e00281. https://doi.org/10.1002/pld3.281.Temporal regulation of metabolome and proteome in photosynthetic and photorespiratory pathways contributes to maize heterosis
                                                        

- (Peer Reviewed Journal)Li, Z., Zhu, A., Song, Q., Chen, H.Y., Harmon, F.G., Chen, Z. 2020. Temporal regulation of metabolome and proteome in photosynthetic and photorespiratory pathways contributes to maize heterosis. The Plant Cell. 32(12):3706-3722. https://doi.org/10.1105/tpc.20.00320.Interspecific analysis of diurnal gene regulation in panicoid grasses identifies known and novel regulatory motifs
                                                        

- (Peer Reviewed Journal)Lai, X., Bendix, C., Yan, L., Zhang, Y., Schnable, J., Harmon, F.G. 2020. Interspecific analysis of diurnal gene regulation in panicoid grasses identifies known and novel regulatory motifs. BMC Genomics. 21. Article 428. https://doi.org/10.1186/s12864-020-06824-3.MicroRNAs and new biotechnological tools for its modulation and improving stress tolerance in plants
                                                        

- (Peer Reviewed Journal)Basso, M.F., Ferreira, P.G., Kobayashi, A.K., Harmon, F.G., Nepomuceno, A.L., Molinari, H.C., Grossi-de-Sa, M.F. 2019. MicroRNAs and new biotechnological tools for its modulation and improving stress tolerance in plants. Plant Biotechnology Journal. 17(8):1482-1500. https://doi.org/10.1111/pbi.13116.Insights into soybean transcriptome reconfiguration under hypoxic stress: Functional, regulatory, structural, and compositional characterization
                                                        

- (Peer Reviewed Journal)Nakayama, T.J., Rodrigues, F.A., Neumaier, N., Marcolina-Gomes, J., Molinari, H.B., Santiago, T.R., Formighieri, E.F., Basso, M.F., Farias, J.R., Emygdio, B.M., De Oliveira, A.C., Campos, A.D., Borem, A., Coleman-Derr, D.A., Mertz-Henning, L.M., Nepomuceno, A. 2017. Insights into soybean transcriptome reconfiguration under hypoxic stress: Functional, regulatory, structural, and compositional characterization. PLoS One. 12(11):e0187920. https://doi.org/10.1371/journal.pone.0187920.SPF45-related splicing factor for phytochrome signaling promotes photomorphogensis by regulating pre-mRNA splicing in arabidopsis
                                                        

- (Peer Reviewed Journal)Xin, R., Zhu, L., Salome, P.A., Mancini, E., Marshall, C.M., Harmon, F.G., Yanovsky, M.J., Weigel, D., Huq, E., 2017. SPF45-related splicing factor for phytochrome signaling promotes photomorphogensis by regulating pre-mRNA splicing in Arabidopsis. Proceedings of the National Academy of Sciences(PNAS). 114(33):E7018-E7027. https://doi.org/10.1073/pnas.1706379114.Functional characterization of a putative glycine max ELF4 transgenic aradopsis and its role during flowering control

- (Peer Reviewed Journal)Gomes, J.M., Henning, L.M., Fuganti-Pagliarini, R., Nepomuceno, A.L., Nakayama, T.J., Molinari, H.B., Basso, M.F., Harmon, F.G. 2017. Functional characterization of a putative glycine max ELF4 transgenic aradopsis and its role during flowering control. Frontiers in Plant Science. 8:618. doi:10.3389/fpls.201.00618.Accurate measurement of transgene copy number in crop plants using droplet digital PCR
                                                        

- (Peer Reviewed Journal)Collier, R.A., Dasgupta, K., Xing, Y., Hernandez, B., Shao, M., Rohozinski, D., Kovak, E., Lin, J.W., De Oliveira, M., Stover, E.W., Mc Cue, K.F., Harmon, F.G., Blechl, A.E., Thomson, J.G., Thilmony, R.L. 2017. Accurate measurement of transgene copy number in crop plants using droplet digital PCR. Plant Journal. 90:1014-1025. https://doi.org/10.1111/tpj.13517.The Arabidopsis sickle mutant exhibits altered circadian clock responses to cool tempatures and tempature-dependent alternative splicing

- (Peer Reviewed Journal)Marshall, C., Tartaglio, V., Duarte, M., Harmon, F.G. 2016. The Arabidopsis sickle mutant exhibits altered circadian clock responses to cool tempatures and tempature-dependent alternative splicing. The Plant Cell. 28(10):2560-2575. doi:10.1105/tpc.16.00223.Temporal shift of circadian-mediated gene expression and carbon fixation contributes to biomass heterosis in maize hybrids

- (Peer Reviewed Journal)Ko, D., Song, Q., Rohozinski, D., Taylor, S., Juenger, T.E., Harmon, F.G., Chen, Z. 2016. Temporal shift of circadian-mediated gene expression and carbon fixation contributes to biomass heterosis in maize hybrids. PLoS Genetics. 12(7):e1006197.Transcriptome-wide identification of reference genes for expression analysis of soybean responses to drought stress along the day

- (Peer Reviewed Journal)Gomes, J.M., Rodrigues, F.A., Fuganti-Pagliarini, R., Nakayama, T.J., Reis, R., Farias, J.B., Harmon, F.G., Nepomuceno, A.L. 2015. Transcriptome-wide identification of reference genes for expression analysis of soybean responses to drought stress along the day. PLoS One. 10(9):e0139051.Daytime soybean transcriptome fluctuations during water deficit stress

- (Peer Reviewed Journal)Rodrigues, F.A., Fuganti-Pagliarini, R., Gomes, J.M., Nakayama, T.J., Molinari, H.C., Lobo, F.P., Harmon, F.G., Nepomuceno, A.L. 2015. Daytime soybean transcriptome fluctuations during water deficit stress. BMC Genomics. 16:505. doi:10.1186/s12864-015-1731-x.Circadian clock genes universally control key agricultural traits
                                                        

- (Peer Reviewed Journal)Benedix, C., Marshall, C., Harmon, F.G. 2015. Circadian clock genes universally control key agricultural traits. Molecular Plant. 8(8):1135-1152. https://doi.org/10.1016/j.molp.2015.03.003.Setaria viridis floral-dip: A simple and rapid Agrobacterium-medicated transformation method

- (Peer Reviewed Journal)Martins, P.K., Nakayama, T.J., Ribeiro, A.P., Brio Da Cunha, B.A., Nepomuceno, A., Harmon, F.G., Kobayashi, A.K., Molinari, H.C. 2015. Setaria viridis floral-dip: A simple and rapid Agrobacterium-medicated transformation method. Plant Biotechnology. 6:61-63.Gibberllin driven growth in elf3 mutants requires PIF4 and PIF5

- (Peer Reviewed Journal)Harmon, F.G., Thines, B., Wu, A., Filo, J., Eliason, E. 2015. Gibberllin driven growth in elf3 mutants requires PIF4 and PIF5. Plant Signaling and Behavior. 10(3):e992707). doi: 10.4161/15592324.2014.992707.The time of day effects of warm temperature on flowering time involve PIF4 and PIF5

- (Peer Reviewed Journal)Thines, B.C., Youngwon, Y., Duarte, M.I., Harmon, F.G. 2014. The time of day effects of warm temperature on flowering time involve PIF4 and PIF5. Journal of Experimental Botany. 65(4):1141-51. DOI: 10.1093/jxb/ert487.Diurnal oscillations of soybean circadian clock and drought responsive genes

- (Peer Reviewed Journal)Gomes, J.M., Rodrigues, F.A., Fuganti-Pagliarini, R., Nakayama, T.J., Bendix, C., Celeya, R., Molinari, H.B., Nepomuceno, A.L., Harmon, F.G. 2014. Diurnal oscillations of soybean circadian clock and drought responsive genes. PLoS One. 9(1):e86402. doi:10.1371/journal.pone.0086402.The homeologous Zea mays gigantea genes: characterization of expression and novel mutant alleles

- (Peer Reviewed Journal)Mendoza, J.H., Bendix, C., Meeley, R., Harmon, F.G. 2012. The homeologous Zea mays gigantea genes: characterization of expression and novel mutant alleles. Maydica. 57:260-265.The circadian clock-associated gene zea mays gigantea1 affects maize developmental transitions

- (Peer Reviewed Journal)Bendix, C., Stanley, D., Mendoza, J.H., Meeley, R., Harmon, F.G. 2013. The circadian clock-associated gene zea mays gigantea1 affects maize developmental transitions. Plant Cell and Environment. 36(7):1379–1390.Ambient temperature response establishes ELF3 as a required component of the Arabidopsis core circadian clock

- (Peer Reviewed Journal)Thines, B., Harmon, F.G. 2010. Ambient temperature response establishes ELF3 as a required component of the Arabidopsis core circadian clock. Proceedings of the National Academy of Sciences. 107(7):3257-3262.Four easy pieces: mechanisms underlying circadian regulation of growth and development

- (Peer Reviewed Journal)Thines, B., Harmon, F.G. 2010. Four easy pieces: mechanisms underlying circadian regulation of growth and development. Current Opinion in Plant Biology. 14:1–7.Coordination of the maize transcriptome by a conserved circadian clock

- (Peer Reviewed Journal)Khan, S., Rowe, S.C., Harmon, F.G. 2010. Coordination of the maize transcriptome by a conserved circadian clock. Biomed Central (BMC) Plant Biology.  10:126.Genome Sequencing and Analysis of the Model Grass Brachypodium Distachyon.

- (Peer Reviewed Journal)Vogel, J.P., Garvin, D.F., Gu, Y.Q., Lazo, G.R., Anderson, O.D., Bragg, J.N., Chingcuanco, D.L., Weng, Y., Belknap, W.R., Thomson, J.G., Dardick, C.D., Baxter, I.R. 2010. Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature. 463:763-768.Genome Sequencing and Analysis of the Model grass Brachypodium distachyon

- (Peer Reviewed Journal)Harmon, F.G., Rowe, S.C., Schnable, J. 2010. Genome Sequencing and Analysis of the Model grass Brachypodium distachyon. Nature. 463(7282)763-8.CUL1 Regulates TOC1 Protein Stability in the Arabidopsis Circadian Clock

- (Peer Reviewed Journal)Harmon, F.G., Imaizumi, T., Gray, W.M. 2008. CUL1 Regulates TOC1 Protein Stability in the Arabidopsis Circadian Clock. Plant Journal. 55(4):568-579.PRR3 Is a Vascular Regulator of TOC1 Stability in the Arabidopsis Circadian Clock

- (Peer Reviewed Journal)Para, A., Farre, E.M., Imaizumi, T., Pruneda-Paz, J., Harmon, F.G., Kay, S.A. 2007. PRR3 Is a Vascular Regulator of TOC1 Stability in the Arabidopsis Circadian Clock. The Plant Cell. Published on November 30, 2007; 10.1105/tpc.107.054775.A Constitutive Shade-Avoidance Mutant Implicates TIR-NBS-LRR Proteins in Arabidopsis Photomorphogenic Development

- (Peer Reviewed Journal)Faigon-Soverna, A., Harmon, F.G., Storani, L., Karayekov, E., Staneloni, R.J., Gassmann, W., Mias, P., Casal, J.J., Kay, S.A., Yanovsky, M.J. 2006. A Constitutive Shade-Avoidance Mutant Implicates TIR-NBS-LRR Proteins in Arabidopsis Photomorphogenic Development. The Plant Cell 18(11):2919-2928.


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