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Strout, R.I., Graham, C.A., Dodd, A.N., Nagel, D.H. (2024). Investigating Circadian Gating of Temperature Responsive Genes. In: Chen, M. (eds) Thermomorphogenesis. Methods in Molecular Biology, vol 2795. Humana, New York, NY.

Bonnot T, Somayanda I, Jagadish S V K and Nagel D H. (2023) Time of day and genotype sensitivity adjust molecular responses to temperature stress in sorghum. The Plant Journal.


Medina-Chávez L, Camacho C,  Martínez-Rodríguez J A, Barrera-Figueroa B E, Nagel D H, Juntawong  P, Peña-Castro J M. (2023) Submergence stress alters the expression of clock genes and configures new zenith and expression of outputs in Brachypodium distachyon. Int. J. Mol. Sci. 24(10), 8555.

Blair, E. J., Goralogia, G. S., Lincoln, M. J., Imaizumi, T., & Nagel, D. H. (2022). Clock-Controlled and Cold-Induced CYCLING DOF FACTOR6 Alters Growth and Development in Arabidopsis. Frontiers in Plant Science, 13.


Bonnot, T., Gillard, M. B., & Nagel, D. H. (2022). CAST-R: An application to visualize circadian and heat stress-responsive genes in plants. Plant Physiology.

Bonnot T, Blair E J, Cordingley S J, and Nagel D H. (2021). Circadian Coordination of Cellular Processes and Abiotic Stress Responses. (Review). Curr Opin Plant Biol. 64:102133. doi: 10.1016/j.pbi.2021.102133.

Bonnot T and Nagel DH. (2021) Time of day prioritizes the pool of translating mRNAs in response to heat stress. Plant Cell.  Volume 33, Issue 7, Pages 2164–2182. doi: 10.1093/plcell/koab113.

Li Y*, Chang Y-G*, Nagel D H, Chen T, Rugnone M L, LiWang A and Kay S A. (2020) A Novel Regulatory Role for the Circadian Clock Protein TOC1 via RNA binding. BioRxiv.

Mody T*, Bonnot Titouan* and Nagel D H. (2020) Interaction between the circadian clock and regulators of heat stress
responses in plants. (Review). Genes 11(2), 156.

Bonnot T, Gillard M B and Nagel D H. (2019) A Simple Protocol for Informative Visualization of Enriched Gene Ontology Terms.

Bio-protocol, (DOI 10.21769/BioProtoc.3429).

Blair E J, Bonnot T, Hummel M, Hay E, Marzolino J M, Quijada I A and Nagel D H.  (2019) Contribution of time of day and the circadian clock to the heat stress responsive transcriptome in Arabidopsis. Scientific Reports 9: 4814.

Nagel D H*, Doherty C J*, Pruneda-Paz J L, Schmitz R J, Ecker J R, and Kay S A. (2015) Genome-wide Identification of CCA1 Targets Uncovers an Expanded Clock Network in Arabidopsis. Proceedings National Academy of Sciences 112: E4802-10.


Nagel, D H, Pruneda-Paz, J L, and Kay, S A. (2014) FBH1 affects warm temperature responses in the Arabidopsis circadian clock. Proceedings National Academy of Sciences 111: 14595 - 14600.


Pruneda-Paz J L*, Breton G*, Nagel D H, Kang S E, Bonaldi K, Doherty C J, Ravelo S, Galli M, Ecker J R, and Kay SA. (2014) A genome-scale resource for the functional characterization of Arabidopsis transcription factors. Cell Reports 8: 622 -632.


Nagel D H and Kay S A (2012). Complexity in the Wiring and Regulation of Plant Circadian Networks. Current Biology 22: R648-R657.


Yang G, Holligan Nagel D, Feschotte C and Wessler S R (2009). Tuned for Transposition: Molecular Determinants Underlying the Hyperactivity of a Stowaway MITE. Science 325: 1391-1394.


Patrick S. Schnable et al. (Holligan Nagel D) (2009). The B maize genome: complexity, diversity and dynamics. Science 326: 1112-1115.


Fusheng Wei, et al. (Nagel D H) (2009). Detailed Analysis of a Contiguous 22-Mb Region of the Maize Genome. PLoS Genetics 5: e1000728


Kwon S J, Cho Y C, Kwon S W, Oh C S, Suh J P, Shin Y S, Kim Y G, (Nagel) Holligan D, Wessler S R, Hwang H G and Ahn S N. (2008). QTL mapping of agronomic traits using an RIL population derived from a cross between temperate japonica cultivars in rice (Oryza sativa L.). Breeding Science 58: 271-279.


(Nagel) Holligan D, Zhang X, Jiang N, Pritham E J and Wessler S R (2006). The transposable element landscape of the model legume Lotus japonicus. Genetics 174: 2215 - 2228.


Tuskan GA, et al. [(Nagel) Holligan D], (2006). The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Science 313 (5793): 1596-604.


Biedler J, Qi Y, (Nagel) Holligan D, Della Torre A, Wessler S R, and Tu Z (2003). Transposable element (TE) display and rapid detection of TE insertion polymorphism in the Anopheles gambiae species complex. Insect Mol. Biol. 12 (3): 211-216.

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