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Shisong  Ma

Shisong Ma


Ph.D. in Biology, University of Illinois at Urbana-Champaign, 2007

Current position

Assistant Project Scientist, Department of Plant Biology & Genome Center, University of California, Davis


  1. Ma, S., Shah, S., Bohnert, H. J., Snyder, M. and Dinesh-Kumar, S. P. (2013). Incorporating motif analysis into gene co-expression networks reveals novel modular expression pattern and new signaling pathways. PLoS Genet 9(10): e1003840.
  2. Padmanabhan, M. S., Ma, S., Burch-Smith, T. M., Czymmek, K., Huijser, P. and Dinesh-Kumar, S. P. (2013). Novel positive regulatory role for the SPL6 transcription factor in the N TIR-NB-LRR receptor-mediated plant innate immunity. PLoS Pathog 9(3): e1003235.
  3. Ma, S., Bachan, S., Porto, M., Bohnert, H. J., Snyder, M. and Dinesh-Kumar, S. P. (2012). Discovery of stress responsive DNA regulatory motifs in Arabidopsis. PLoS One 7(8): e43198.
  4. Lee, H. Y., Bowen, C. H., Popescu, G. V., Kang, H. G., Kato, N., Ma, S., Dinesh-Kumar, S., Snyder, M. and Popescu, S. C. (2011). Arabidopsis RTNLB1 and RTNLB2 Reticulon-like proteins regulate intracellular trafficking and activity of the FLS2 immune receptor. Plant Cell 23(9): 3374-3391.
  5. Miura, K., Lee, J., Gong, Q., Ma, S., Jin, J. B., Yoo, C. Y., Miura, T., Sato, A., Bohnert, H. J. and Hasegawa, P. M. (2011). SIZ1 regulation of phosphate starvation-induced root architecture remodeling involves the control of auxin accumulation. Plant Physiol 155(2): 1000-1012.
  6. Ma, S. and Bohnert, H. J. (2008). Gene networks in Arabidopsis thaliana for metabolic and environmental functions. Mol Biosyst 4(3): 199-204.
  7. Li, P., Ma, S. and Bohnert, H. J. (2008). Coexpression characteristics of trehalose-6-phosphate phosphatase subfamily genes reveal different functions in a network context. Physiol Plant 133(3): 544-556.
  8. Ma, S., Gong, Q. and Bohnert, H. J. (2007). An Arabidopsis gene network based on the graphical Gaussian model. Genome Res 17(11): 1614-1625.
  9. Ma, S. and Bohnert, H. J. (2007). Integration of Arabidopsis thaliana stress-related transcript profiles, promoter structures, and cell-specific expression. Genome Biol 8(4): R49.
  10. Lee, J., Nam, J., Park, H. C., Na, G., Miura, K., Jin, J. B., Yoo, C. Y., Baek, D., Kim, D. H., Jeong, J. C., Kim, D., Lee, S. Y., Salt, D. E., Mengiste, T., Gong, Q., Ma, S., Bohnert, H. J., Kwak, S. S., Bressan, R. A., Hasegawa, P. M. and Yun, D. J. (2007). Salicylic acid-mediated innate immunity in Arabidopsis is regulated by SIZ1 SUMO E3 ligase. Plant J 49(1): 79-90.
  11. Ma, S., Gong, Q. and Bohnert, H. J. (2006). Dissecting salt stress pathways. J Exp Bot 57(5): 1097-1107.
  12. Bohnert, H. J., Gong, Q., Li, P. and Ma, S. (2006). Unraveling abiotic stress tolerance mechanisms--getting genomics going. Curr Opin Plant Biol 9(2): 180-188.
  13. Gong, Q., Li, P., Ma, S., Indu Rupassara, S. and Bohnert, H. J. (2005). Salinity stress adaptation competence in the extremophile Thellungiella halophila in comparison with its relative Arabidopsis thaliana. Plant J 44(5): 826-839.
  14. Ma, S., Quist, T. M., Ulanov, A., Joly, R. and Bohnert, H. J. (2004). Loss of TIP1;1 aquaporin in Arabidopsis leads to cell and plant death. Plant J 40(6): 845-859.
  15. Inan, G., Zhang, Q., Li, P., Wang, Z., Cao, Z., Zhang, H., Zhang, C., Quist, T. M., Goodwin, S. M., Zhu, J., Shi, H., Damsz, B., Charbaji, T., Gong, Q., Ma, S., Fredricksen, M., Galbraith, D. W., Jenks, M. A., Rhodes, D., Hasegawa, P. M., Bohnert, H. J., Joly, R. J., Bressan, R. A. and Zhu, J. K. (2004). Salt cress. A halophyte and cryophyte Arabidopsis relative model system and its applicability to molecular genetic analyses of growth and development of extremophiles. Plant Physiol 135(3): 1718-1737.
Protocols by Shisong Ma
  1. SGR-based Reporter to Assay Plant Transcription Factor-promoter Interactions
  2. Gene Networks Based on the Graphical Gaussian Model