@conference {4126,
	title = {Preparation and pilot experiments on microfluidic chip with surface acoustic waves},
	booktitle = {23rd Slovak-Czech-Polish Optical Conference on Wave and Quantum Aspects of Contemporary Optics},
	year = {2025},
	publisher = {International Society for Optics and Photonics},
	organization = {International Society for Optics and Photonics},
	keywords = {AIF, MF},
	doi = {10.1117/12.3056740},
	url = {https://doi.org/10.1117/12.3056740},
	author = {J. Vejrosta and S. Cabalov{\'a} and T. Plichta and M. {\v S}er{\'y} and T. Ma{\v n}ka and O. Samek and P. Zem{\'a}nek},
	editor = {Du{\v s}an Pudi{\v s} and Daniel Jandura and Ivana Lettrichov{\'a}}
}
@article { SedlacekAMB19,
	title = {What keeps polyhydroxyalkanoates in bacterial cells amorphous? A derivation from stress exposure experiments},
	journal = {Appl. Microbiol. Biotech.},
	volume = {103},
	number = {4},
	year = {2019},
	pages = {1905-1917},
	keywords = {BF, MF},
	doi = {10.1007/s00253-018-09584-z},
	author = {P. Sedl{\'a}{\v c}ek and Slaninov{\'a}, E. and Enev, V. and Koller, M. and J. Nebes{\'a}{\v r}ov{\'a} and I. M{\'a}rov{\'a} and K. Hrubanov{\'a} and V. Krzy{\v z}{\'a}nek and O. Samek and S. Obru{\v c}a}
}
@article { ProchazkaSAB18,
	title = {Combination of laser-induced breakdown spectroscopy and Raman spectroscopy for multivariate classification of bacteria},
	journal = {Spec. Acta Part B},
	volume = {139},
	year = {2018},
	pages = {6-12},
	keywords = {BF, MF},
	doi = {10.1016/j.sab.2017.11.004},
	author = {D. Proch{\'a}zka and M. Mazura and O. Samek and K. Rebro{\v s}ov{\'a} and P. Po{\v r}{\'\i}zka and J. Klus and P. Proch{\'a}zkov{\'a} and J. Novotn{\'y} and K. Novotn{\'y} and J. Kaiser}
}
@article { PilatSENS18SERS,
	title = {Detection of chloroalkanes by surface-enhanced raman spectroscopy in microfluidic chips},
	journal = {Sensors},
	volume = {18},
	year = {2018},
	pages = {3212},
	keywords = {BF, MF},
	doi = {10.3390/s18103212},
	author = {Z. Pil{\'a}t and Kizovsk{\'y}, M. and J Je{\v z}ek and Kr{\'a}tk{\'y}, S. and Sobota, J. and M {\v S}iler and O. Samek and Bury{\v s}ka, T. and Va{\v n}{\'a}{\v c}ek, P. and Damborsk{\'y}, J. and Prokop, Z. and P. Zem{\'a}nek}
}
@article { PilatSENS18Ecoli,
	title = {Microfluidic Cultivation and Laser Tweezers Raman Spectroscopy of E-coli under Antibiotic Stress},
	journal = {Sensors},
	volume = {18},
	year = {2018},
	pages = {1623},
	keywords = {BF, MF},
	doi = {10.3390/s18051623},
	author = {Z. Pil{\'a}t and Silva Bernatov{\'a} and J Je{\v z}ek and Kirchhoff, J. and Tannert, A. and Neugebauer, U. and O. Samek and P. Zem{\'a}nek}
}
@article { HrubanovaSENS18,
	title = {Monitoring Candida parapsilosis and Staphylococcus epidermidis Biofilms by a Combination of Scanning Electron Microscopy and Raman Spectroscopy},
	journal = {Sensors},
	volume = {18},
	number = {12},
	year = {2018},
	pages = {4089},
	keywords = {BF, MF},
	doi = {10.3390/s18124089},
	author = {K. Hrubanov{\'a} and V. Krzy{\v z}{\'a}nek and J. Nebes{\'a}{\v r}ov{\'a} and F. R{\r u}{\v z}i{\v c}ka and Z. Pil{\'a}t and O. Samek}
}
@article {RebrosovsaFB17,
	title = {Differentiation between Staphylococcus aureus and Staphylococcus epidermidis strains using Raman spectroscopy},
	journal = {Future Microbiology},
	volume = {12},
	year = {2017},
	pages = {10},
	keywords = {BF, MF},
	doi = {10.2217/fmb-2016-0224},
	author = {K. Rebro{\v s}ov{\'a} and M {\v S}iler and O. Samek and F. R{\r u}{\v z}i{\v c}ka and Silva Bernatov{\'a} and J Je{\v z}ek and P. Zem{\'a}nek and V. Hol{\'a}}
}
@article {HrubanovaMM17,
	title = {Morphological and Production Changes in Planktonic and Biofilm Cells Monitored Using SEM and Raman Spectroscopy},
	journal = {Microscopy and Microanalysis},
	volume = {23},
	year = {2017},
	pages = {S1},
	keywords = {BF, MF},
	doi = {10.1017/S1431927617006456},
	author = {K. Hrubanov{\'a} and V. Krzy{\v z}{\'a}nek and O. Samek and R. Skoup{\'y} and M {\v S}iler and J Je{\v z}ek and S. Obru{\v c}a and P. Zem{\'a}nek}
}
@article {ObrucaNB17,
	title = {The presence of PHB granules in cytoplasm protects non-halophilic bacterial cells against the harmful impact of hypertonic environments},
	journal = {New Biotechnol.},
	volume = {39},
	year = {2017},
	pages = {10},
	keywords = {BF, MF},
	doi = {10.1016/j.nbt.2017.07.008},
	author = {S. Obru{\v c}a and P. Sedl{\'a}{\v c}ek and F. Mravec and V. Krzy{\v z}{\'a}nek and J. Nebes{\'a}{\v r}ov{\'a} and O. Samek and D. Ku{\v c}era and Pavla Bene{\v s}ov{\'a} and K. Hrubanov{\'a} and M. Milerov{\'a} and I. M{\'a}rov{\'a}}
}
@article {RebrosovaSR17,
	title = {Rapid identification of staphylococci by Raman spectroscopy},
	journal = {Sci. Rep.},
	volume = {7},
	year = {2017},
	pages = {14846},
	keywords = {BF, MF},
	doi = {10.1038/s41598-017-13940-w},
	author = {K. Rebro{\v s}ov{\'a} and M {\v S}iler and O. Samek and F. R{\r u}{\v z}i{\v c}ka and S. Bernatov{\'a} and V. Hol{\'a} and J Je{\v z}ek and P. Zem{\'a}nek and J. Sokolov{\'a} and P. Petr{\'a}{\v s}}
}
@article { MravecFEMSML16,
	title = {Accumulation of PHA granules in Cupriavidus necator as seen by confocal fluorescence microscopy},
	journal = {FEMS Microbiology Letters},
	volume = {363},
	year = {2016},
	pages = {10},
	keywords = {MF},
	doi = {10.1093/femsle/fnw094},
	author = {F. Mravec and S. Obru{\v c}a and V. Krzy{\v z}{\'a}nek and P. Sedl{\'a}{\v c}ek and K. Hrubanov{\'a} and O. Samek and D. Ku{\v c}era and Pavla Bene{\v s}ov{\'a} and J. Nebes{\'a}{\v r}ov{\'a}}
}
@article { ObrucaPLOSONE16,
	title = {Accumulation of Poly(3-hydroxybutyrate) Helps Bacterial Cells to Survive Freezing},
	journal = {PLoS ONE},
	volume = {11},
	year = {2016},
	pages = {e0157778},
	keywords = {MF},
	doi = {10.1371/journal.pone.0157778},
	author = {S. Obru{\v c}a and P. Sedl{\'a}{\v c}ek and V. Krzy{\v z}{\'a}nek and F. Mravec and K. Hrubanov{\'a} and O. Samek and D. Ku{\v c}era and Pavla Bene{\v s}ov{\'a} and I. M{\'a}rov{\'a}}
}
@article { ObrucaAMB16,
	title = {Evaluation of 3-hydroxybutyrate as an enzyme-protective agent against heating and oxidative damage and its potential role in stress response of poly(3-hydroxybutyrate) accumulating cells},
	journal = {Appl Microbiol Biotechnol},
	volume = {100},
	year = {2016},
	pages = {1365-1376},
	keywords = {MF},
	doi = {10.1007/s00253-015-7162-4},
	author = {S. Obru{\v c}a and P. Sedl{\'a}{\v c}ek and F. Mravec and O. Samek and I. M{\'a}rov{\'a}}
}
@article { HrubanovaMM16,
	title = {Morphological and Production Changes in Stressed Red Yeasts Monitored Using SEM and Raman Spectroscopy},
	journal = {Microscopy and Microanalysis},
	volume = {22},
	year = {2016},
	pages = {S3},
	keywords = {MF},
	doi = {10.1017/S1431927616006577},
	author = {K. Hrubanov{\'a} and O. Samek and A. Haronikov{\'a} and Silva Bernatov{\'a} and P. Zem{\'a}nek and I. M{\'a}rov{\'a} and V. Krzy{\v z}{\'a}nek}
}
@article {SamekSENS16,
	title = {Quantitative Raman Spectroscopy Analysis of Polyhydroxyalkanoates Produced by Cupriavidus necator H16},
	journal = {Sensors},
	volume = {16},
	year = {2016},
	pages = {1808},
	keywords = {MF},
	doi = {10.3390/s16111808},
	author = {O. Samek and S. Obru{\v c}a and M {\v S}iler and P. Sedl{\'a}{\v c}ek and Pavla Bene{\v s}ov{\'a} and D. Ku{\v c}era and I. M{\'a}rov{\'a} and J Je{\v z}ek and Silva Bernatov{\'a} and P. Zem{\'a}nek}
}
@article { KrzyzanekMM15,
	title = {Cryo-SEM and Raman Spectroscopy Study of the Involvement of Polyhydroxyalkanoates in Stress Response of Bacteria},
	journal = {Microscopy and Microanalysis},
	volume = {21},
	number = {S3},
	year = {2015},
	pages = {183-184},
	keywords = {MF},
	doi = {10.1017/S1431927615001713},
	author = {V. Krzy{\v z}{\'a}nek and K. Hrubanov{\'a} and O. Samek and S. Obru{\v c}a and I. M{\'a}rov{\'a} and Silva Bernatov{\'a} and M {\v S}iler and P. Zem{\'a}nek}
}
@article { SamekJBO15,
	title = {Identification of individual biofilm-forming bacterial cells using Raman tweezers},
	journal = {J. Biomed. Opt.},
	volume = {20},
	number = {5},
	year = {2015},
	keywords = {MF},
	doi = {10.1117/1.JBO.20.5.051038},
	author = {O. Samek and Silva Bernatov{\'a} and J Je{\v z}ek and M {\v S}iler and M. {\v S}er{\'y} and V. Krzy{\v z}{\'a}nek and K. Hrubanov{\'a} and P. Zem{\'a}nek and V. Hol{\'a} and F. R{\r u}{\v z}i{\v c}ka}
}
@article { MlynarikovaSENS15,
	title = {Influence of Culture Media on Microbial Fingerprints Using Raman Spectroscopy},
	journal = {Sensors},
	volume = {15},
	year = {2015},
	pages = {29635-29647},
	keywords = {MF},
	doi = {10.3390/s151129635},
	author = {K. Mlynarikov{\'a} and O. Samek and Silva Bernatov{\'a} and F. R{\r u}{\v z}i{\v c}ka and J Je{\v z}ek and A. Haronikov{\'a} and M {\v S}iler and P. Zem{\'a}nek and V. Hol{\'a}}
}
@article { HrubanovaMM15,
	title = {Monitoring of Multilayered Bacterial Biofilm Morphology by Cryo-SEM for Raman Spectroscopy Measurements},
	journal = {Microscopy and Microanalysis},
	volume = {21},
	year = {2015},
	pages = {187-188},
	keywords = {MF},
	doi = {10.1017/S1431927615001737},
	author = {K. Hrubanov{\'a} and Silva Bernatov{\'a} and O. Samek and M. {\v S}er{\'y} and P. Zem{\'a}nek and J. Nebes{\'a}{\v r}ov{\'a} and F. R{\r u}{\v z}i{\v c}ka and V. Krzy{\v z}{\'a}nek}
}
@article { SamekMM15,
	title = {SEM and Raman Spectroscopy Applied to Biomass Analysis for Application in the Field of Biofuels and Food Industry},
	journal = {Microscopy and Microanalysis},
	volume = {21},
	year = {2015},
	pages = {1775-1776},
	keywords = {MF},
	doi = {10.1017/S1431927615009654},
	author = {O. Samek and A. Haronikov{\'a} and N. Va{\v s}kovicov{\'a} and K. Hrubanov{\'a} and J Je{\v z}ek and I. M{\'a}rov{\'a} and V. Krzy{\v z}{\'a}nek and P. Zem{\'a}nek}
}
@article { BurdikovaDS15,
	title = {SEM and Raman Spectroscopy Applied to Biomass Analysis for Application in the Field of Biofuels and Food Industry},
	journal = {Dairy Sci. Technol.},
	volume = {95},
	year = {2015},
	pages = {687-700},
	keywords = {MF},
	doi = {10.1007/s13594-015-0253-2},
	author = {Z. Burdikov{\'a} and Z. Svindrych and C. Hickey and M. G. Wilkinson and M. A. E. Auty and O. Samek and Silva Bernatov{\'a} and V. Krzy{\v z}{\'a}nek and A. Periasamy and J. J. Sheehan}
}
@article {PorizkaSENS14,
	title = {Algal Biomass Analysis by Laser-Based Analytical Techniques{\textemdash}A Review},
	journal = {Sensors},
	volume = {14},
	year = {2014},
	pages = {17725-17752},
	keywords = {MF},
	doi = {10.3390/s140917725},
	author = {Po{\v r}{\'\i}zka, P. and P. Proch{\'a}zkov{\'a} and D. Proch{\'a}zka and Sl{\'a}dkov{\'a}, L. and Novotn{\'y}, J. and Petrilak, M. and Brada, M. and O. Samek and Pil{\'a}t, Z. and P. Zem{\'a}nek and Adam, V. and Kizek, R. and Novotn{\'y}, J. and Kaiser, J.}
}
@article { SamekIJMC14,
	title = {Candida parapsilosis Biofilm Identification by Raman	Spectroscopy},
	journal = {Int. J. Mol. Sci.},
	volume = {15},
	year = {2014},
	pages = {23924-23935},
	keywords = {MF},
	doi = {10.3390/ijms151223924},
	author = {O. Samek and K. Mlynarikov{\'a} and Silva Bernatov{\'a} and J Je{\v z}ek and V. Krzy{\v z}{\'a}nek and M {\v S}iler and P. Zem{\'a}nek and F. R{\r u}{\v z}i{\v c}ka and V. Hol{\'a} and M. Mahelov{\'a}}
}
@article { BernatovaMol13,
	title = {Following the mechanisms of bacteriostatic versus bacericidal action using Raman spectroscopy},
	journal = {Molecules},
	volume = {18},
	year = {2013},
	pages = {13188-13199},
	keywords = {MF},
	doi = {10.3390/molecules181113188},
	author = {Silva Bernatov{\'a} and O. Samek and Z. Pil{\'a}t and M. {\v S}er{\'y} and J Je{\v z}ek and P J{\'a}kl and M {\v S}iler and V. Krzy{\v z}{\'a}nek and P. Zem{\'a}nek and V. Hol{\'a} and M. Dvo{\v r}{\'a}{\v c}kov{\'a} and F. R{\r u}{\v z}i{\v c}ka}
}
@article {PorizkaSAB12,
	title = {Application of laser-induced breakdown spectroscopy to the analysis of	algal biomass for industrial biotechnology},
	journal = {Spectrochim. Acta B},
	volume = {74-75},
	year = {2012},
	pages = {169-176},
	keywords = {MF},
	doi = {10.1016/j.sab.2012.06.014},
	author = {P. Po{\v r}{\'\i}zka and D. Proch{\'a}zka and Z. Pil{\'a}t and Kraj{\v c}arov{\'a}, L. and J. Kaiser and Malina, R. and J. Novotn{\'y} and P. Zem{\'a}nek and J Je{\v z}ek and M. {\v S}er{\'y} and Silva Bernatov{\'a} and V. Krzy{\v z}{\'a}nek and Dobransk{\'a}, K. and K. Novotn{\'y} and M. Trt{\'\i}lek and O. Samek}
}
@article { PilatJAP2012,
	title = {Raman microspectroscopy of algal lipid bodies: beta-carotene quantification},
	journal = {J. Appl. Phycol.},
	volume = {24},
	year = {2012},
	pages = {541-546},
	keywords = {MF},
	doi = {10.1007/s10811-011-9754-4},
	author = {Z. Pil{\'a}t and Silva Bernatov{\'a} and J Je{\v z}ek and M. {\v S}er{\'y} and O. Samek and P. Zem{\'a}nek and L. Nedbal and M. Trt{\'\i}lek}
}
@article { SamekLPL11,
	title = {Characterization of oil-producing microalgae using Raman spectroscopy},
	journal = {Laser Phys. Lett.},
	volume = {8},
	year = {2011},
	pages = {701{\textendash}709},
	keywords = {MF},
	doi = {10.1002/lapl.201110060},
	author = {O. Samek and P. Zem{\'a}nek and A. Jon{\'a}{\v s} and Telle, H. H.}
}
@article { SamekLPL10,
	title = {The potential of Raman spectroscopy for the identification of biofilm formation by Staphylococcus	epidermidis},
	journal = {Laser Phys. Lett.},
	volume = {7},
	year = {2010},
	pages = {378{\textendash}383},
	type = {Article},
	keywords = {MF},
	doi = {10.1002/lapl.200910154},
	author = {O. Samek and Al-Marashi, J. F. M. and Telle, H. H.}
}
@article { Samek2010,
	title = {Raman Microspectroscopy of Individual Algal Cells: Sensing Unsaturation of Storage Lipids in vivo},
	journal = {Sensors},
	volume = {10},
	year = {2010},
	pages = {8635{\textendash}8651},
	keywords = {MF},
	doi = {10.3390/s100908635},
	author = {O. Samek and A. Jon{\'a}{\v s} and Z. Pil{\'a}t and P. Zem{\'a}nek and L. Nedbal and T{\v r}{\'\i}ska, J. and Kotas, P. and M. Trt{\'\i}lek}
}
