PUBLICATIONS

33. Tutol, J. N.; Ong, W. S. Y.; Phelps, S. M.; Peng, W.; Goenewan, H.; Dodani, S. C.* “The ChlorON Series: Turn-on fluorescent protein sensors for imaging labile chloride in living cells.” bioRxiv. Preprint. [PDF]. ACS Central Science, 2023, DOI: 10.1021/acscentsci.3c01088. [PDF].

32. Phelps, S. M.; Tutol, J. N.; Advani, D.; Peng, W.; Dodani, S. C.* “Unlocking chloride sensing in the red at physiological pH with a fluorescent rhodopsin-based host.” ChemRxivPreprint. [PDF]. ChemComm. 2023, 59, 8460–8463. [PDF].

31. Ong, W. S. Y.; Ji, K.; Pathiranage, V.; Maydew, C.; Baek, K.; Villones, R. L. E.; Meloni, G.; Walker, A.*; Dodani, S. C.* “Rational design of the β-bulge gate in a green fluorescent protein accelerates the kinetics of sulfate sensing.” ChemRxivPreprint. [PDF]. Angewandte Chemie International Edition 2023, e202302304. [PDF]. 

30.  Peng, W.; Maydew, C.; Kam, H.; Lynd, J.; Tutol, J. N.; Phelps, S. M.; Abeyrathna, S.; Meloni, G.; Dodani, S. C.* “Discovery of a monomeric green fluorescent protein sensor for chloride by structure-guided bioinformatics.”bioRxiv. Preprint. [PDF]. Chemical Science, 2022, 13, 12659–12672. [PDF]. 

29. Chi, H.; Zhou, Q.; Tutol, J. N.; Phelps, S. M.; Lee, J.; Kapadia, P.; Morcos, F.*; Dodani, S. C.* “Coupling a live cell directed evolution assay with coevolutionary landscapes to engineer an improved fluorescent rhodopsin chloride sensor.” bioRxiv. Preprint. [PDF]. ACS Synthetic Biology, 2022, 111627–1638. [PDF]. 

28. Diwakara, S. D.; Ong, W. S. Y.; Wijesundara, Y. H.; Gearhart, R. L.; Herbert, F. C.; Fisher, S.; McCandless, G. T.; Alahakoon, S. B.; Gassensmith, J. J; Dodani, S. C.; Smaldone, R. A.* “Supramolecular Reinforcement of a Large Pore 2D Covalent Organic Framework.” ChemRxiv. Preprint. [PDF]. Journal of the American Chemical Society, 2022, 144, 2468–2473. [PDF]. 

27. Ji, K; Baek, K.; Peng, W.; Alberto, K. A.; Torabifard, H.; Nielsen, S. O.*; Dodani, S. C.* “Biophysical and in silico characterization of NrtA: A protein-based host for aqueous nitrate and nitrite recognition.” ChemRxiv. Preprint. [PDF]. ChemComm, 2022, 58, 965-968. [PDF]. 

26. Baek, K.; Ji, K.; Peng, W.; Liyanaarachichi, S. M.; Dodani, S.C.*  “The design and synthesis of protein-based fluorescent sensors for ions in biology.” Protein Engineering, Design, and Selection2021, 34,  gzab023. [PDF]

25. Chen, C.; Tutol, J. N.; Tang, L.; Zhu, L.; Ong, W. S. Y.; Dodani S. C.*; Fang, C.* “Excitation ratiometric chloride sensing in a yellow fluorescent protein is powered by the interplay between excited-state proton transfer and conformational reorganization.” Chemical Science, 2021, 12, 11382-11393. [PDF].

24. Tutol, J. N.; Lee, J.; Chi, H.; Faizuddin, F.; Abeyrathna, S. S.; Zhou, Q.; Morcos, F.; Meloni, G.; Dodani, S. C.* “A single point mutation converts a proton-pumping rhodopsin into a red-shifted, turn-on fluorescent sensor for chloride.” ChemRxiv. Preprint. [PDF]. Chemical Science, 2021, 12, 5655-5663. [PDF]. 

23. Baglia, R. A.; Mills, K. R.; Mitra, K.; Tutol, J. N.; Ball, D.; Page, K. M.; Kallu, J.; Gottipolu, S.; D’Arcy, S.; Nielsen, S. O.; Dodani, S. C.* “An activity-based fluorescent sensor for the detection of the phenol sulfotransferase SULT1A1 in living cells.” ChemRxiv. Preprint. [PDF]. RSC Chemical Biology, 2021, 2, 830-834. (Selected for the Editor’s Choice article collection). [PDF]

22. Gallentio, M. J.; Qasim, T. S.; Tutol, J. N.; Prakash, V.; Dodani, S. C.; Meloni, G.* “A recombinant platform to characterize the role of transmembrane protein hTMEM205 in Pt(II)-drug resistance and extrusion.” Metallomics 202012, 1542-1544. [PDF]

21. Ong, W. S. Y.; Smaldone, R. A.*; Dodani, S. C.* “A neutral porous organic polymer host for the recognition of anionic dyes in water.ChemRxiv. Preprint. [PDF]. Chemical Science 202011, 7716-7721. [PDF

20. Kam, H.; Ranathunga, D. T. S.; Payne, E. R.; Smaldone, R. A.; Nielsen, S. O.; Dodani, S. C.* “Spectroscopic characterization and in silico modelling of polyvinylpyrrolidone as an anion-responsive fluorescent polymer in aqueous media.” Supramolecular Chemistry 201931, 514-522. (Part of the Emerging Supramolecular Chemists in the United States Issue). [PDF]

19. Tutol, J. N.; Kam, H.; Dodani, S. C.* “Identification of mNeonGreen as a pH-dependent, turn-on fluorescent protein sensor for chloride.” ChemBioChem 201920, 1759-1765. (Part of the ChemBioTalents Issue; Cover article). [PDF]

18. Tutol, J. N.; Peng, W.; Dodani, S. C.* “Discovery and characterization of a naturally occurring, turn-on yellow fluorescent protein sensor for chloride.” Biochemistry 201958, 31-35. (Part of the Future of Biochemistry: The International Issue). [PDF] [C&EN]


17. Boulet, A.; Vest, K. E.; Maynard, M. K.; Gammon, M. G.; Russell, A.C.; Mathews, A.T.; Cole, S. E.; Zhu, X.; Phillips, C. B.; Kwong, J. Q.; Dodani, S. C.; Leary, S. C.; Cobine, P. A.* “The mammalian phosphate carrier SLC25A3 is a mitochondrial copper transporter required for cytochrome c oxidase biogenesis.” J. Biol. Chem. 2018, 293, 1887-1896. 

16. Herwig, L.; Rice, A. J.; Bedbrook, C. N.; Zhang, R. K.; Lignell, A.; Cahn, J. K. B.; Renata, H.; Dodani, S. C.; Cho, I.; Cai, L.; Gradinaru, V.; Arnold, F. H.* “Directed evolution of a bright near-infrared fluorescent rhodopsin using a synthetic chromophore.” Cell Chem. Biol. 2017, 24, 1-11.

15. Dodani, S. C.; Kiss, G.; Cahn, J. K. B.; Su, Y; Pande, V. S.*; Arnold, F. H.* “Discovery of a regioselectivity switch in the nitrating cytochrome P450 TxtE guided by MD simulations and Markov models.” Nat. Chem. 2016, 8, 419-425. (Cover article)

14. Dodani, S. C.; Firl, A.; Chan, J.; Nam, C. I.; Onak, C.; Feller, M. F.*; Chang, C. J.* “Copper is an endogenous modulator of neural circuit spontaneous activity.” Proc. Natl. Acad. Sci. USA 2014, 111, ‍16280-16285. (Highlighted by LBNL News, Chem. Eng. News, and R&D Magazine)

13. Hong-Hermesdorf, A.; Miethke, M.; Gallaher, S. D.; Kropat, J.; Dodani, S. C.; Chan, J.; Barupala, D.; Domaille, D. W.; Shirasaki, D. I.; Loo, J. A.; Weber, P. K.; Pett-Ridge, J.; Stemmler T. L.; Chang, C. J.; Merchant, S. S.* “Subcellular metal imaging identifies dynamic sites of Cu accumulation in Chlamydomonas.” Nat. Chem. Biol. 2014, 10, 1034-1042.

12. Heel, T.; McIntosh, J. A.; Dodani, S. C.; Meyerowitz, J. T.; Arnold, F. H.* “Non-natural olefin cyclopropanation catalyzed by diverse cytochrome P450s and other hemoproteins.” ChemBioChem 2014, 15, ‍2556-2562.

11. Dodani, S. C.; Cahn, J. K. B.; Heinisch, T.; Brinkmann-Chen, S.; McIntosh, J. A.; Arnold, F. H.* “Structural, functional, and spectroscopic characterization of the substrate scope of the novel nitrating cytochrome P450 TxtE.” ChemBioChem 2014, 15, ‍2259-2267.

10. Garcia-Molina, A.; Andrés-Colás, N.; Perea-García, A.; Neumann, U.; Dodani, S. C.; Huijser, P.; Peñarrubia, L.; Puig, S.* “The Arabidopsis COPT6 transport protein functions in copper distribution under copper-deficient conditions.” Plant Cell Physiol. 2013, 54, ‍1378-1390.

9. Cusick, K. D.; Wetzel, R. K.; Minkin, S. C. Jr.; Dodani, S. C.; Wilhelm, S. W.; Sayler, G. S.* “Paralytic shellfish toxins inhibit copper uptake in Chlamydomonas reinhardtii.” Environ. Sci. Technol. 2013, 32, ‍1388-1395.

8. Chan, J.; Dodani, S. C.; Chang, C. J.* “Reaction-based small-molecule fluorescent probes for chemoselective bioimaging.” Nat. Chem. 2012, 4, 973-984.

7. Bernal M.; Casero D.; Singh V.; Wilson G. T.; Grande, A.; Yang H.; Dodani, S.C.; Pellegrini, M.; Huijser, P.; Connolly, E. L.; Merchant S. S.; Krämer, U.* “Transcriptome sequencing identifies SPL7-regulated copper acquisition genes FRO4/FRO5 and the copper dependence of iron homeostasis in arabidopsis.” Plant Cell. 2012, 24, ‍2738-2761.

6. Cusick, K. D.; Minkin, S.; Dodani, S. C.; Chang, C. J.; Wilhelm, S. W.; Sayler, G. S.* “Inhibition of copper uptake in yeast reveals that the copper transporter Ctr1p as a potential molecular target of saxitoxin.” Environ. Sci. Technol. 2012, 45, ‍2959-2966.

5. Beadoin, J.; Ioannoni, R.; Lopez-Maury, L.; Bahler, J.; Ait-Mohand, S.; Guerin, B.; Dodani, S.C.; Chang, C.J., Labbe, S.* “Mfc1 is a novel forespore membrane copper transporter in meiotic and sporulating cells.” J. Biol. Chem. 2011, 286, ‍34356-34372.

4. Dodani, S. C.; Leary, S. C.; Cobine, P. A.; Winge, D. R.; Chang, C. J.* “A targetable fluorescent sensor reveals that copper-deficient SCO1 and SCO2 patient cells prioritize mitochondrial copper homeostasis.” J. Am. Chem. Soc. 2011, 133, ‍8606-8616.

3. Dodani, S. C.; Domaille, D. W.; Nam, C. I.; Miller, E. W.; Finney, L. A.; Vogt, S.; Chang, C. J.* “Calcium-dependent copper redistributions in neuronal cells revealed by a fluorescent copper sensor and X-ray fluorescence microscopy.” Proc. Natl. Acad. Sci. USA 2011, 108, ‍5980-5985.

2. Moore, E. G.; Xu, J.; Dodani, S. C.; Jocher, C. J.; D’Alo, A.; Seitz, M.; Raymond, K. N.* “1-Methyl-3-hydroxy-pyridin-2-one complexes of near infra-red emitting lanthanides: efficient sensitization of Yb(III) and Nd(III) in aqueous solution.” Inorg. Chem. 2010, 49, ‍4156-4166.

1. Dodani, S. C.; He, Q.; Chang, C. J.* “A turn-on fluorescent sensor for detecting nickel in living cells.” J. Am. Chem. Soc. 2009, 131, ‍18020-18021.