1.         Whitmore D, Foulkes NS#, Sassone-Corsi P Light acts directly on organs and cells in culture to set the vertebrate circadian clock.(2000) Nature. 404: 87-91.

2.         Whitmore D, Cermakian N, Crosio C, Foulkes NS, Pando MP, Travnickova Z, Sassone-Corsi P. (2000) A clockwork organ.  Biol Chem. 381:793-800.

3.         Cermakian N, Whitmore D, Foulkes NS, Sassone-Corsi P. (2000) Asynchronous oscillations of two zebrafish CLOCK partners reveal differential clock control and function. Proc Natl Acad Sci U S A.97:4339-44.

4.         Foulkes NS, Cermakian N, Whitmore D, Sassone-Corsi P. (2000) Rhythmic transcription: the molecular basis of oscillatory melatonin synthesis. Novartis Found Symp. 227:5-14; discussion 15-8.

5.         Foulkes NS, Sassone-Corsi P.  Molecular clocks (joint Juan March/EMBO workshop) Madrid, May 10-12, 1999. (2000) EMBO J. 19:789-91.


6.         Vyas S., Biguet NF., Michel PP., Monaco L., Foulkes NS., Evan GI., Sassone-Corsi P., Agid, Y. (2002) Molecular mechanisms of neuronal cell death: implications for nuclear factors responding to cAMP and phorbol esters. Mol. Cell. Neurosci. 21: 1-14.


7.         Dekens MPS., Santoriello C., Vallone D., Grassi G., Whitmore D., Foulkes NS. (2003)  Light regulates the cell cycle in zebrafish. Curr. Biol. 13: 2051-7

8.         Tamai TK., Vardhanabhuti V., Arthur S., Foulkes NS., Whitmore D. (2003) Flies and fish: birds of a feather. J. Neuroendocrinol. 15: 344-9.


9.         Tamai KT., Vardhanabhuti V., Foulkes NS., Whitmore D. (2004) Early embryonic light detection improves survival. Curr. Biol. 14: R104-5.

10.       Vallone D., Gondi SB., Whitmore D., Foulkes NS. (2004) E-box function in a period gene repressed by light. Proc. Natl. Acad. Sci. USA. 101: 4106-11.


11.       Lahiri K., Vallone D., Gondi SB., Santoriello C., Dickmeis, T., Foulkes NS. (2005) Temperature regulates transcription in the zebrafish circadian clock. Plos Biology  (2005) 3, e351.

12.       Vallone, D., Lahiri, K., Dickmeis, T., Foulkes, NS. Zebrafish cell clocks feel the heat and see the light. Zebrafish (2005) 2, 171-187.


13.       Appelbaum L., Vallone D., Anzulovich A., Ziv L., Tom M., Foulkes, NS. Gothilf Y. Zebrafish arylalkylamine-N-acetyltransferase genes – targets for regulation of the circadian clock. J. Mol. Endocrinol.(2006) 36, 171-187.

14.       Frigato E., Vallone D., Bertolucci C., Foulkes NS*. Isolation and characterization of melanopsin and pinopsin expression within photoreceptive sites of reptiles. Naturwissenschaften (2006) 93, 379-385.

15.       Vallone D., Frigato, E., Vernesi, C., Foa, A., Foulkes, NS., Bertolucci, C. Hypothermia modulates circadian clock gene expression in lizard peripheral tissues. Am. J. Physiol. Regul. Integr. Comp. Physiol. (2006) 292, R160-166.

16.       Helfer G, Fidler AE, Vallone D, Foulkes NS, Brandstaetter R. Molecular analysis of clock gene expression in the avian brain. Chronobiol. Int. (2006) 23, 113-127.

17. Rembold M, Lahiri K, Foulkes NS, Wittbrodt J. Transgenesis in fish: efficient selection of transgenic fish by co-injection with a fluorescent reporter construct. Nat Protoc. (2006) 1, 1133-9


18.       Dickmeis, T., Lahiri, K., Nica, G., Vallone, D., Santoriello, C., Neumann, CJ., Hammerschmidt, M., Foulkes, NS. Glucocorticoids play a key role in circadian cell cycle rhythms  Plos Biology (2007) 5, e78.

19.       Vallone, D., Lahiri, K., Dickmeis, T., Foulkes, NS. Start the clock! Circadian rhythms and development. Dev. Dyn. (2007) 236, 142-155.

20.       Zilberman-Peled B, Appelbaum L, Vallone D, Foulkes NS, Anava S, Anzulovich A, Coon SL, Klein DC, Falcón J, Ron B, Gothilf Y. Transcriptional regulation of arylalkylamine-N-acetyltransferase-2 gene in the pineal gland of the gilthead seabream. J Neuroendocrinol. (2007) 19, 46-53.

21. Vallone D, Santoriello C, Gondi SB, Foulkes NS. Basic protocols for zebrafish cell lines: maintenance and transfection. Methods Mol Biol (2007) 362, 429-41.


22. Cossins AR, Williams DR, Foulkes NS, Berenbrink M, Kipar A Diverse cell-specific expression of myoglobin isoforms in brain, kidney, gill and liver of the hypoxia-tolerant carp and zebrafish. J Exp Biol. (2009) 212, 627-38.

23. Vatine G, Vallone D, Appelbaum L, Mracek P, Ben-Moshe Z, Lahiri K, Gothilf Y, Foulkes NS. Light directs zebrafish period2 expression via conserved D and E boxes. PLoS Biol. (2009)  7:e1000223.


24. Ben-Moshe Z, Vatine G, Alon S, Tovin A, Mracek P, Foulkes NS, Gothilf Y. Multiple PAR and E4BP4 bZIP transcription factors in zebrafish: diverse spatial and temporal expression patterns. Chronobiol. Int. (2010) 27, 1059-31

25Dickmeis T, Foulkes NS. Glucocorticoids and Circadian Clock Control of Cell Proliferation: At the Interface between Three Dynamic Systems. Mol Cell Endocrinol. (2010) 331, 11-22.


26. Weger BD, Sahinbas M, Otto GW, Mracek P, Armant O, Dolle D, Lahiri K, Vallone D, Ettwiller L, Geisler R, Foulkes NS*, Dickmeis T. The light responsive transcriptome of the zebrafish: function and regulation. PLoS One. (2011) 6: e17080. 

27. Vatine G, Vallone D, Gothilf Y, Foulkes NS. It’s time to swim! Zebrafish and the circadian clock. FEBS Lett. (2011) 585, 1485-94.

28. Cavallari N., Frigato E., Vallone D., Fröhlich N., Lopez Olmeda JF., Foà A., Berti R., Sánchez Vázquez FJ., Bertolucci C., Foulkes NS. A Blind Circadian Clock in Cavefish Reveals that Opsins Mediate Peripheral Clock Photoreception. PLoS Biol. (2011). 9: e1001142.


29. Idda ML, Kage E, Lopez-Olmeda JF, Mracek P, Foulkes NS, Vallone D. Circadian timing of injury-induced cell proliferation in zebrafish. PLoS One. (2012). 7: e34203.

30. Tarttelin EE, Frigato E, Bellingham J, Di Rosa V, Berti R, Foulkes NS, Lucas RJ, Bertolucci C. Encephalic photoreception and phototactic response in the troglobiont Somalian blind cavefish Phreatichthys andruzzii. J Exp Biol. (2012) 215: 2898-903.

31. Idda ML, Bertolucci C, Vallone D, Gothilf Y, Sánchez-Vázquez FJ, Foulkes NS. Circadian clocks: lessons from fish. Prog Brain Res. (2012) 199: 41-57.

32. Mracek P, Santoriello C, Idda ML, Pagano C, Ben-Moshe Z, Gothilf Y, Vallone D, Foulkes, NS. Regulation of per and cry genes reveals a central role for the D-box enhancer in light-dependent gene expression. PLoS One. (2012) 7: e51278.

33. Tovin A, Alon S, Ben-Moshe Z, Mracek P, Vatine G, Foulkes NS, Jacob-Hirsch J, Rechavi G, Coon SL, Klein DC, Eisenberg E, and Gothilf Y. Systematic identification of rhythmic genes reveals camk1gb as a new element in the circadian clockwork. PLoS Genetics (2012) 8: e1003116.

34. Idda ML, Bertolucci C, Vallone D, Gothilf Y, Sánchez-Vázquez FJ, Foulkes NS. Circadian clocks: lessons from fish. Prog Brain Res. (2012) 199: 41-57.


35. Smadja Storz S, Tovin A, Mracek P, Alon S, Foulkes NS and Gothilf Y. Casein kinase 1d activity: a key element in the zebrafish circadian timing system. PLoS One (2013) 8, e54189.

36. Elbaz I, Foulkes NS, Gothilf Y and Appelbaum, L. Circadian clocks, rhythmic synaptic plasticity and the sleep-wake cycle in zebrafish. Front Neural Circuits (2013) 1;7:9.

37. Cavodeassi F, Del Bene F, Fürthauer M, Grabher C, Herzog W, Lehtonen S, Linker C, Mercader N, Mikut R, Norton W, Strähle U, Tiso N and Foulkes NS. Report of the second European zebrafish principal investigator meeting in Karlsruhe, Germany, March 21-24, 2012. Zebrafish (2013) 10, 119-23.

38. Mracek P, Pagano C, Fröhlich N, Idda ML, Cuesta IH, Lopez-Olmeda JF, Sánchez-Vázquez FJ, Vallone D, Foulkes, NS. ERK signaling regulates light-induced gene expression via D-box enhancers in a differential, wavelength-dependent manner. PLoS One. (2013) 8: e67858.


39. Villamizar N, Vera LM, Foulkes NS, Sánchez-Vázquez FJ. Effect of lighting conditions on zebrafish growth and development. Zebrafish (2014) 11, 173-81.

40. Ben-Moshe Z, Alon S, Mracek P, Faigenbloom L, Tovin A, Vatine GD, Eisenberg, E, Foulkes NS, Gothilf Y. The light-induced transcriptome of the zebrafish pineal gland reveals complex regulation of the circadian clockwork by light. Nucleic Acids Res. (2014) 42: 3750-67.

41. Cuesta IH, Lahiri K, Lopez-Olmeda JF, Loosli F, Foulkes NS, Vallone D. Differential maturation of rhythmic clock gene expression during early development in medaka (Oryzias latipes). Chronobiol. Int. (2014) 31: 468-78.

42. Lahiri K, Fröhlich N,  Heyd A, Foulkes NS, Vallone D. Developmental stage-specific regulation of the circadian clock by temperature in zebrafish. Biomed. Res. Int. (2014) 2014: 930308.

43. Ben-Moshe Z, Foulkes NS, Gothilf Y. Functional development of the circadian clock in the zebrafish pineal gland. Biomed. Res. Int. (2014) 2014: 235781.


44. Stemmer M, Schuhmacher LN, Foulkes NS, Bertolucci C, Wittbrodt J. Cavefish eye loss in response to an early block in retinal differentiation progression. Development (2015) 142:743-52.


45. Calderoni L, Rota-Stabelli O, Frigato E, Panziera A, Kirchner S, Foulkes NS, Kruckenhauser L, Bertolucci C, Fuselli S. Relaxed selective constraints drove functional modifications in peripheral photoreception of the cavefish P. andruzzii and provide insight into the time of cave colonization. Heredity. (2016) 117:383-392. 

46. Foulkes NS, Whitmore D, Vallone D, Bertolucci C. Studying the Evolution of the Vertebrate Circadian Clock: The Power of Fish as Comparative Models. Adv Genet. (2016) 95: 1-30.

47. Ben-Moshe Livne Z, Alon S, Vallone D, Bayleyen Y, Tovin A, Shainer I, Nisembaum LG, Aviram I, Smadja-Storz S, Fuentes M, Falcón J, Eisenberg E, Klein DC, Burgess HA, Foulkes NS, Gothilf Y. Genetically Blocking the Zebrafish Pineal Clock Affects Circadian Behavior. PLoS Genet. (2016) 12: e1006445. 


48. Pagano C., Di Martino, O., Ruggiero, G., Guarino, A.M., Mueller, N., Siauciunaite, R., Reischl,M., Foulkes, N.S., Vallone, D. and Calabrò, V. The tumor-associated YB-1 protein: new player in the circadian control of cell proliferation. Oncotarget (2017) 8: 6193-205.

49. Dekens MP, Foulkes NS, Tessmar-Raible K. Instrument design and protocol for the study of light controlled processes in aquatic organisms, and its application to examine the effect of infrared light on zebrafish. PLoS One. (2017) 12: e0172038.


50. Pagano C, Siauciunaite R, Idda ML, Ruggiero G, Ceinos RM, Pagano M, Frigato E, Bertolucci C, Foulkes NS, Vallone D. Evolution shapes the responsiveness of the D-box enhancer element to light and reactive oxygen species in vertebrates. Sci Rep. (2018) 8: 13180.

51. Sloin HE, Ruggiero G, Rubinstein A, Smadja Storz S, Foulkes NS, Gothilf Y. Interactions between the circadian clock and TGF-β signaling pathway in zebrafish. PLoS One. (2018) 13: e0199777.

52. Ceinos RM, Frigato E, Pagano C, Fröhlich N, Negrini P, Cavallari N, Vallone D, Fuselli S, Bertolucci C, Foulkes NS. Mutations in blind cavefish target the light-regulated circadian clock gene, period 2. Sci Rep. (2018) 8: 8754.

53. Zhao H, Di Mauro G, Lungu-Mitea S, Negrini P, Guarino AM, Frigato E, Braunbeck T, Ma H, Lamparter T, Vallone D, Bertolucci C, Foulkes NS. Modulation of DNA repair systems in blind cavefish during evolution in constant darkness. Curr Biol. (2018) 28: 3229.


54. Guarino AM, Mauro GD, Ruggiero G, Geyer N, Delicato A, Foulkes NS, Vallone D, Calabrò V. YB-1 recruitment to stress granules In zebrafish cells reveals a differential adaptive response to stress. Sci Rep. (2019) 9: 9059.

55. Siauciunaite R, Foulkes NS, Calabrò V, Vallone D. Evolution shapes the gene expression response to oxidative stress. Int. j. Mol. Sci. (2019) 20: pii: E3040.

56. Ceinos RM, Chivite M, López-Patino MA, Naderi F, Soengas JL, Foulkes NS, Miguez JM. Differential circadian and light-driven rhythmicity of clock gene expression and behaviour In the turbot, Scophthalmus maximusPLoS One (2019) 14: e0219153.


57. Lucon-Xiccato T, Conti F, Loosli F, Foulkes NS, Bertolucci C., Development of Open-Field Behaviour in the Medaka, Oryzias latipes. Biology (2020) 9: 389.

58. Gornik SG, Bergheim BG, Morel B, Stamatakis A, Foulkes NS, Guse A. Photoreceptor diversification accompanies the evolution of Anthozoa. Mol. Biol. Evol. (2020) msaa304, doi: 10.1093/molbev/msaa304.


59. Zhao H, Li H, Du J, Di Mauro G, Lungu-Mitea S, Geyer N, Vallone D, Bertolucci C, Foulkes NS. Regulation of ddb2 expression in blind cavefish and zebrafish reveals plasticity in the control of sunlight-induced DNA damage repair. PLoS Genet (2021) 17(2):e1009356.  doi: 10.1371/journal.pgen.1009356.

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