Journal Publications

70. Tokarz, D., Cisek, R., Joseph, A., Golaraei, A., Mirsanaye, K., Krouglov, S., Asa, S.L., Wilson, B. and Barzda. V. (2019) Characterization of Pancreatic Cancer Tissue using Multiphoton Excitation Fluorescence and Polarization-Sensitive Harmonic Generation Microscopy, Frontiers in Oncology, (in press).

69. Krouglov, S. and Barzda, V. (2019) Three-dimensional nonlinear Stokes–Mueller polarimetry, J. Opt. Soc. Am. B, 36(2):541-550.

68. Golaraei, A., Mirsanaye, K., Ro, Y., Krouglov, S., Akens, M.K., Wilson, B.C. and Barzda, V. (2018) Collagen chirality and three-dimensional orientation studied with polarimetric second-harmonic generation microscopy, J. Biophotonics, e201800241, 1-9.

67. Fung, K.L.B., Samim, M., Gribble, A., Barzda, V. and Vitkin, I.A. (2018) Monte Carlo simulation of polarization-sensitive second-harmonic generation and propagation in biological tissue, J. Biophotonics, e201800036, 1-11.

66. Cisek, R., Tokarz, D., Kontenis, L., Barzda, V. and Steup, M. (2018) Polarimetric second harmonic generation microscopy: An analytical tool for starch bioengineering, Starch/Stärke, 70: 1700031 1-15 (review).

65. Karunendiran, A., Cisek, R., Tokarz, D., Barzda, V. and Stewart, B. A. (2017) Examination of Drosophila eye development with third harmonic generation microscopy, Biomed Opt. Express, 8(10):4505-4513.

64. Burke, M., Golaraei, A., Atkins, A., Akens, M., Barzda, V. and Whyne, C. (2017) Collagen fibril organization within rat vertebral bone modified with metastatic involvement, J. Struct. Biol. 199:153-164.

63. Krouglov, S. and Barzda, V. (2017) Modified Gibbs’s representation of rotation matrix, Ann. Fond. Louis de Broglie, 42(2):1-15.

62. Kontenis L., Samim, M., Krouglov, S. and Barzda, V. (2017) Third-harmonic generation Stokes-Mueller polarimetric microscopy, Opt. Express, 25(12):13174-13189.

61. Samim, M., Krouglov, S., James, D. F. and Barzda, V. (2016) Characterization of heterogeneous media using nonlinear Stokes–Mueller polarimetry, J. Opt. Soc. Am. B, 33: 2617-2625.

60. Golaraei, A., Kontenis, L., Cisek, R., Tokarz, D., Done, S. J., Wilson, B. C., and Barzda, V. (2016) Changes of collagen ultrastructure in breast cancer tissue determined by second-harmonic generation double Stokes-Mueller polarimetric microscopy, Biomed Opt. Express, 7: 4054-4068.

59. Samim, M., Krouglov, S. and Barzda, V. (2016) Three-photon Stokes-Mueller polarimetry, Phys. Rev. A., 93: 033839-1-13.

58. Samim, M., Krouglov, S. and Barzda, V. (2016) Nonlinear Stokes-Mueller polarimetry, Phys. Rev. A., 93:013847-1-6.

57. Kontenis, L., Samim, M., Karunendiran, A., Krouglov, S., Stewart, B. and Barzda, V. (2016) Second harmonic generation double Stokes Mueller polarimetric microscopy of myofilaments, Biomed. Opt. Express, 7:559-569.

56. Cui, L., Tokarz, D., Cisek, R., Ng, K.K., Wang, F., Chen, J., Barzda, V. and Zheng, G. (2015) Organized aggregation of porphyrins in lipid bilayer for third harmonic generation microscopy, Angew. Chem., 127:14134-14138.

55. Cisek, R., Tokarz, D., Steup, M., Tetlow, I.J., Emes, M.J., Hebelstrup, K.H., Blennow, A. and Barzda, V. (2015) Second harmonic generation microscopy investigation of the crystalline ultrastructure of three barley starch lines affected by hydration, Biomed. Opt. Express, 6: 3694-3700.

54. Tokarz, D., Cisek, R., Golaraei, A., Asa, S.L., Barzda, V. and Wilson B.C. (2015) Ultrastructural features of collagen in thyroid carcinoma tissue observed by polarization second harmonic generation microscopy, Biomed. Opt. Express, 6: 3475-3480.

53. Samim, M., Krouglov, S. and Barzda, V. (2015) Double Stokes Mueller polarimetry of second harmonic generation in ordered molecular structures, J. Opt. Soc. Am. B, 32: 451-461.

52. Cisek, R., Tokarz, D., Krouglov, S., Steup, M., Emes, M.J., Tetlow, I.J. and Barzda, V. (2014) Second harmonic generation mediated by aligned water in starch granules, J. Phys. Chem. B, 118: 14785-14794.

51. Cisek, R., Tokarz, D., Hirmiz, N., Saxena, A., Shik, A. Ruda, H. and Barzda, V. (2014) Crystal lattice determination of ZnSe nanowires with polarization-dependent second harmonic generation microscopy, Nanotechnology, 25: 505703+01-09.

50. Golaraei, A., Cisek, R., Krouglov, S., Navab, R., Niu, C., Sakashita, S., Yasufuku, K., Tsao, M.S., Wilson, B. C., and Barzda, V. (2014) Characterization of collagen in non-small cell lung carcinoma with second harmonic polarization microscopy, Biomed. Opt. Express, 5: 3562- 3567.

49. Tokarz, D., Cisek, R., El-Ansari, O., Espie, G. S., Fekl, U., and Barzda, V. (2014) Organization of astaxanthin within oil bodies of Haematococcus pluvialis studied with polarization-dependent harmonic generation microscopy, PLOS ONE, 9: e107804-1-8

48. Samim, M., Prent, N., Dicenzo D., Stewart, B. and Barzda, V. (2014) Second harmonic generation polarization properties of myofilaments, J. Biomed. Opt. 19: 056005-1-056005-6.

47. Piunno, P. A. E., Boyd, C., Barzda, V., Gradinaru, G. C., Krull, U. J., Stefanovic, S. and Stewart, B. (2014) The advanced interdisciplinary research laboratory: A student team approach to the fourth-year research thesis project experience, J. Chem. Educ., 91:655-661.

46. Sandkuijl, D., Kontenis, L., Coelho, N. M., McCulloch, C. and Barzda, V. (2014) Interferometric backward third harmonic generation microscopy for axial imaging with accuracy beyond the diffraction limit, PLOS ONE, 9:e94458 1-6.

45. Tokarz, D., Cisek, R., Krouglov, S., Kontenis, L., Fekl, U., and Barzda, V. (2014) Molecular organization of crystalline β‑carotene in carrots determined with polarization-dependent second and third harmonic generation microscopy, J. Phys. Chem, B., 118:3814−3822.

44. Samim, M., Sandkuijl, D., Tretyakov, I., Cisek, R. and Barzda, V. (2013) Differential polarization nonlinear optical microscopy with adaptive optics controlled multiplexed beams, Int. J. Mol. Sci., 14:18520-18534.

43. Tokarz, D., Cisek, R., Fekl, U. and Barzda, V., (2013) The molecular second hyperpolarizability of the light-harvesting chlorophyll a/b pigment−protein complex of photosystem II, J. Phys. Chem, B., 117:11069−11075.

42. Sandkuijl, D, Tuer, A. E., Tokarz, D., Sipe, J. E. and Barzda, V. (2013) Numerical second- and third-harmonic generation microscopy, J. Opt. Soc. Am. B, 30:382-395.

41. Tokarz, D., Cisek, R., Prent, N., Fekl, U. and Barzda, V. (2012) Measuring the molecular second hyperpolarizability in absorptive solutions by the third harmonic generation ratio technique, Anal. Chim. Acta, 755:86-92.

40. Tuer, A. E., Akens, M. K., Krouglov, S. Sandkuijl, D., Wilson, B. C., Whyne, C. M. and Barzda, V. (2012) Hierarchical Model of Fibrillar Collagen Organization for Interpreting the Second-Order Susceptibility Tensors in Biological Tissue, Biophys J. 103:2093-2105.

39. Tokarz, D., Cisek, R., Garbaczewska, M., Sandkuijl, D., Qiu, X. P., Stewart, B., Levine, J. D., Fekl, U. and Barzda, V. (2012) Carotenoid Based Bio-Compatible Labels for Third Harmonic Generation Microscopy, Phys. Chem. Chem. Phys., 14: 10653-10661.

38. Prent, N., Tuer, A., Cisek, R., Samim, M., Krouglov, S. and Barzda, V. (2012) Polarization-in Polarization-out second harmonic generation microscopy in striated muscle, Proc. Int. School Phys. "Enrico Fermi", SIF, Bologna and IOS Press, Amsterdam.

37. Tuer, A., Krouglov, S., Prent, N., Cisek, R., Sandkuijl, D., Yasufuku, K., Wilson, B.C. and Barzda, V. (2011) Nonlinear Optical Properties of Type I Collagen Fibers Studied by Polarization Dependent Second Harmonic Generation Microscopy, J. Phys. Chem. B, 115:12759-12769.

36. Cisek, R., Barzda, V., Ruda, H. E. and Shik, A. (2011) Nonlinear Optical Properties of Semiconductor Nanowires, Ieee J. Select. Topic. Quant. Electron., 17:915-921 (invited paper).

35. Tuer, A., Krouglov, S., Cisek, R., Tokarz, D. and Barzda V. (2011) Three-dimensional visualization of the first hyperpolarizability tensor, J. Comp. Chem. 32:1128-1134.

34. Samim, M, Cisek, R., Sandkuijl, D., Musikhin, S., Prent, N. Stewart, B. and Barzda V.(2010) Towards fast 3D microscopy: multiple depth focusing for video-rate imaging, Phys Canada, 66:183-185.

33. Tokarz, D, Tuer, A., Cisek, R., Krouglov, S. and Barzda V. (2010) Ab initio calculations of the linear and nonlinear optical properties of amino acids, J. Phys, 256:012015-1-5.

32. Sandkuijl, D., Cisek, R., Major, A., and Barzda V. (2010) Differential microscopy for fluorescence-detected nonlinear absorption linear anisotropy based on a staggered two-beam femtosecond Yb:KGW oscillator, Biomed. Opt. Express, 1:895-901.

31. Tuer, A., Tokarz, D., Prent, N., Cisek, R., Alami, J., Dumont, D., Bakueva, L., Rowlands, J. and Barzda, V. (2010) Nonlinear multicontrast microscopy of hematoxylin-and-eosin-stained histological sections, J. Biomed. Opt. 15:0260181-02601819.

30. Major, A., Sandkuijl, D. and Barzda, V. (2009) A diode-pumped continuous-wave Yb:KGW laser with Ng-axis polarized output, Laser Phys. Lett., 6: 779-781.

29. Prent, N., Greenhalgh, C., Cisek, R., Major, A. Aus der Au, J., Elmore, S., Van Beek, J.H.G.M., Stewart, B., Squier, J. and Barzda, V. (2009) Second harmonic generation microscopy reveals contraction dynamics in muscle cells, Phys Canada, 65:129-131.

28. Major, A., Sandkuijl, D. and Barzda, V. (2009) Efficient frequency doubling of a femtosecond Yb:KGW laser in a BiB3O6 crystal, Opt. Express, 17:12039-12042.

27. Spencer, T. L., Cisek, R., Barzda, V., Philipose, U., Ruda, H. E. and Shik, A. (2009) Orientation dependent nonlinear optical effects in ZnSe nanowires, Appl. Phys. Lett. 94:2331191- 2331193; (Selected for June 29, 2009 issue of Virtual Journal of Nanoscale Science & Technology).

26. Cisek, R, Spencer, T. L., Prent, N., Zigmantas, D., Espie, G. S. and Barzda, V. (2009) Optical Microscopy in Photosynthesis, Photosynth. Res., 102: 111-141 (invited review).

25. Carriles, R., Schafer, D. N., Sheetz, K. E., Field, J. J., Cisek, R., Barzda, V. and Squier, J. A. (2009) Invited review article: Imaging techniques for harmonic and multiphoton absorption fluorescence microscopy, Rev. Sci. Inst., 80: 08110101-08110123.

24. Major, A., Cisek, R., Sandkuijl, D. and Barzda, V. (2008) Femtosecond Yb:KGd(WO4)2 laser with >100 nJ of pulse energy, Laser Phys. Lett., 6:272-274.

23. Carriles, R., Sheetz, K.E., Hoover, E.E, Squier, J.A. and Barzda, V. (2008) Simultaneous multifocal, multiphoton, photon counting microscopy, Opt. Express, 16:10364-10371.

22. Prent, N., Green, C., Greenhalgh, C., Cisek, R., Major, A., Stewart, B., and Barzda, V. (2008) Inter-myofilament dynamics of myocytes revealed by second harmonic generation microscopy, J. Biomed. Opt. 13:041318-1 041318-7.

21. Barzda V., Cisek R., Spencer T. L., Philipose U., Ruda H. E., and Shik A. (2008) Giant anisotropy of second harmonic generation for a single ZnSe nanowire, Appl. Phys. Lett. 92:1131111-1131113; (Selected for March 31, 2008 issue of Virtual Journal of Nanoscale Science & Technology).

20. Greenhalgh, C., Prent, N., Green, C., Cisek R., Major, A., Stewart, B. and Barzda, V., (2007) The influence of semicrystalline order in anisotropic bands on the second harmonic generation efficiency of myocytes, Appl. Opt., 46:1852-1859.

19. Major A., Cisek R., and Barzda V. (2006) Femtosecond Yb:KGd(WO4)2 laser oscillator pumped by a high power fiber-coupled diode laser module, Opt. Express, 14:12163-12168.

18. Major, A., Barzda, V., Piunno, P.A.E., Musikhin, S., and Krull U. J. (2006) An extended cavity diode-pumped femtosecond Yb:KGW laser for applications in optical DNA sensor technology based on fluorescence lifetime measurements, Opt. Express, 14:5285-5294.

17. Barzda V., Greenhalgh C., Aus der Au J., Elmore S., van Beek J.H.G.M., Squier J. (2005) Visualization of mitochondria in cardiomyocytes by simultaneous harmonic generation and fluorescence microscopy, Opt. Express, 13:8263-8276.

16. Cseh Z., Vianelli A., Rajagopal S., Krumova S.; Kovács L., Papp E., Barzda V., Jennings R., Garab G. (2005) Thermo-optically induced reorganization in the main light harvesting antenna of plants. I. Non-Arrhenius type of temperature dependence and linear light-intensity dependencies, Photosynth. Res., 86:263-273.

15. Barzda, V., Ionov, M., Van Amerongen, H., Gussakovsky, E. E. and Shahak, Y, (2004) The effect of pea chloroplast alignment and variation of excitation wavelength on the circularly polarized chlorophyll luminescence, J. Fluorescence, 14: 207-216.

14. Lampoura, S.S., Barzda, V., Owen, G.M., Hoff, A.J., van Amerongen, H., (2002) Aggregation of LHCII leads to a redistribution of the triplets over the central xanthophylls in LHCII, Biochemistry, 41: 9139-9144.

13. Barzda, V., Grauw C.J., Vroom, J.M., Kleima, F.J., van Amerongen, H., van Grondelle, R. and Gerritsen, H., (2001) Fluorescence lifetime heterogeneity in aggregates of LHCII revealed by time resolved microscopy, Biophys. J., 81: 538-546.

12. Barzda, V., Gulbinas, V., Kananavicius, R., Cervinskas, V., van Amerongen H., van Grondelle, R. and Valkunas, L., (2001) Singlet-Singlet Annihilation Kinetics in Aggregates and Trimers of LHCII, Biophys. J., 80: 2409-2421.

11. Gussakovsky, E. E., Shahak, Y., van Amerongen, H. and Barzda, V., (2000) Circularly polarized chlorophyll luminescence reflects the macro-organization of grana in pea chloroplasts, Photosynth. Res., 65: 83-92.

10. Barzda, V., Vengris, M., Valkunas, L., van Grondelle, R., van Amerongen, H. (2000) Generation of fluorescence quenchers from the triplet states of chlorophylls in the major light-harvesting complex II from green plants, Biochemistry, 39(N34):10468-10477.

9. Barzda, V., Jennings, R., Zucchelli and Garab, G. (1999) Kinetic analysis of the light-induced fluorescence quenching in light-harvesting chlorophyll a/b pigment-protein complex of photosystem II,  Photochem. Photobiol., 70(N5):751-759.

8. Simidjiev, I., Barzda, V., Mustardy, L., and Garab, G. (1998) Role of thylakoid lipids in the structural flexibility of lamellar aggregates of the isolated light-harvesting chlorophyll a/b complex of photosystem II, Biochemistry, 37(12): 4169-4173.

7. Barzda, V., Peterman, E.J.G., van Grondelle, R. and van Amerongen, H. (1998) The influence of aggregation on triplet formation in light-harvesting chlorophyll a/b pigment-protein complex II of green plants, Biochemistry, 37(2): 546-551.

6. Gussakovsky, E.E., Barzda, V., Shahak, Y. and Garab G. (1997) Irreversible disassembly of chiral macrodomains in thylakoids due to photoinhibition, Photosynth. Res., 51(2):119-126.

5. Simidjiev, I., Barzda, V., Mustardy, L. and Garab G. (1997) Isolation of lamellar aggregates of the light-harvesting chlorophyll a/b protein complex of photosystem II with long-range chiral order and structural flexibility, Anal. Biochem., 250(2):169-175.

4. Barzda, V., Istokovics, A., Simidjiev, I. and Garab G. (1996) Structural flexibility of chiral macroaggregates of light-harvesting chlorophyll a/b pigment-protein complexes. Light-induced reversible structural changes associated with energy dissipation, Biochemistry, 35(27):8981-8985.

3. Barzda, V., Garab, G., Gulbinas, V. and Valkunas, L. (1996) Evidence for long-range excitation energy migration in macroaggregates of the chlorophyll a/b light-harvesting antenna complexes, Biochim. Biophys. Acta, 1273(3):231-236.

2. Barzda, V., Mustardy, L. and Garab G. (1994) Size dependency of circular dichroism in macroaggregates of photosynthetic pigment-protein complexes, Biochemistry, 33(35):10837-10841.

1. Osvath, S., Meszena, G., Barzda, V. and Garab, G. (1994) Trapping magnetically oriented chloroplast thylakoid membranes in gels for electric measurements. J. Photochem. Photobiol., 26(3):287-292.


3. Cisek, R., Prent, N., Greenhalgh, C., Sandkuijl, D., Tuer, A., Major, A. and Barzda V. (2008) Multicontrast Nonlinear Imaging Microscopy, In Biochemical Applications of Nonlinear Optical Spectroscopy, V.V. Yakovlev ed, pp:73-103, CRC Press.

2. Squier, J., Müller, M., and Barzda, V. (2008) Multiphoton Microscopy with Ultrafast Lasers, In Ultrafast Optics, R. Trebino and J Squier eds, Vol. 2, Ch. 22, pp.1-32, Trafford Publishing, currently published on line:

1. Barzda V. (2008) Non-linear Contrast Mechanisms for Optical Microscopy, In Biophysical Techniques in Photosynthesis, Volume 2, T. Aartsma and J. Matysik eds, Book series: Advances in Photosynthesis, series ed. Govindjee, pp:35-54, Springer.


Last Modified: Friday 17th June, 2011.