Publications

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. https://doi.org/10.1007/978-1-0716-3814-9_20

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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. https://doi.org/10.1111/tpj.16467

 

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. https://doi.org/10.3390/ijms24108555

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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. https://doi.org/10.3389/fpls.2022.919676

 

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. https://doi.org/10.1093/plphys/kiac121

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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.

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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.

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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. https://doi.org/10.1101/2020.05.06.071340.

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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.

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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).

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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.

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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.