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Biological physics

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Research within life sciences includes experimental and theoretical investigations.

Main domains of research include:

  • Experimental investigations pf characteristic space scales in water solutions of DNA and other (bio)polyelectrolites by means of dielectric spectroscopy.
  • Experimental investigations of complexes of RecA proteins and DNA molecules of characteristic helicoidal symmetry.
  • Protein-DNA and protein-RNA interactions.
  • Theoretical investigations of complexion of proteins and DNA molecules. Especially interesting are RNA viruses as systems with spontaneous self-construction. Investigations of DNA viruses as well, especially regarding the condensed phase of DNA molecule within the virus, depending on the presence of one- or two-valence ions.
  • Protein-protein interactions based on electrostatics of charges on proteins in solutions, and the dependence pH and salinity of solution (Poisson-Boltzmann).

 

Publications

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Redžović, Zuzana; Erk, Marijana; Gottstein, Sanja; Sertić Perić, Mirela; Dautović, Jelena; Fiket, Željka; Brkić, Antun Lovro; Cindrić, MarioMetal bioaccumulation in stygophilous amphipod Synurella ambulans in the hyporheic zone: The influence of environmental factors
Science of the total environment, 866 (2023), 161350, 15
DOI: 10.1016/j.scitotenv.2022.161350 20230102

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Svetličić, Ema; Dončević, Lucija; Ozdanovac, Luka; Janeš, Andrea; Tustonić, Tomislav; Štajduhar, Andrija; Brkić, Antun Lovro; Čeprnja, Marina; Cindrić, MarioDirect Identification of Urinary Tract Pathogens by MALDI-TOF/TOF Analysis and De Novo Peptide Sequencing
Molecules, 27 (2022), 5461, 13
DOI: 10.3390/molecules27175461 20220825

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Klačić T., Peranić N., Radatović B.,Kovačević D.Biocompatible hydroxyapatite nanoparticles as templates for the preparation of thin film polyelectrolyte multilayer nanocapsules
Colloids and Surfaces A: Physicochemical and Engineering Aspects, 648, 129385, (2022)
DOI: 10.1016/j.colsurfa.2022.129385 20220604

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Matijaković Mlinarić, Nives; Selmani, Atiđa; Brkić, Antun Lovro; Njegić Džakula, Branka; Kralj, Damir; Kontrec, JasminkaExposure of microplastics to organic matter in waters enhances microplastic encapsulation into calcium carbonate
Environmental Chemistry Letters, 20 (2022), 2235-2242
DOI: 10.1007/s10311-022-01433-w 20220414

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Selmani, A.; Seibert, E.; Tetyczka, C.; Kuehnelt, D.; Vidakovic, I.; Kornmueller, K.; Absenger-Novak, M.; Radatović, B.; Vinković Vrček, I.; Leitinger, G.; Fröhlich, E.; Bernkop-Schnürch, A.; Roblegg, E.; Prassl, R.Thiolated Chitosan Conjugated Liposomes for Oral Delivery of Selenium Nanoparticles
Pharmaceutics, 14, 803, (2022)
DOI: 10.3390/pharmaceutics14040803 20220406

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Anže Božič, Antonio ŠiberMechanics of inactive swelling and bursting of porate pollen grains
Biophysical Journal 121, 1–11, March 1, (2022)
DOI: 10.1016/j.bpj.2022.01.019 20220131

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K. Serec, S. Dolanski Babić, and S. TomićMagnesium ions reversibly bind to DNA double stranded helix in thin films
Spetrochimica Acta A: Molecular and Biomolecular Spectroscopy 268, 120663 (2021)
DOI: 10.1016/j.saa.2021.120663 20211126

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Par, Matej; Prskalo, Katic; Tauböck, Tobias T.; Skenderovic, Hrvoje; Attin, Thomas; Tarle, ZrinkaPolymerization kinetics of experimental resin composites functionalized with conventional (45S5) and a customized low-sodium fluoride-containing bioactive glass
Sci Rep 11, 21225 (2021)
DOI: 10.1038/s41598-021-00774-w 20211027

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Mlinarić Matijaković Nives; Šafranko, Silvija; Vidas, Bernarda; Goman, Dominik; Jokić, Stela; Kontrec, Jasminka; Njegić Džakula, Branka; Delač Marion, Ida; Medvidović-Kosanović, Martina; Stanković, AnamarijaPrecipitation of Calcium Oxalate Monohydrate Under Nearly the Same Initial Supersaturation
Croatica chemica acta 94 , 1; 1-8 (2021)
DOI: 10.5562/cca3806 20210914

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Šafranko, Silvija; Goman, Sara; Goman, Dominik; Jokić, Stela; Delač Marion, Ida; Matijaković Mlinarić, Nives; Selmani, Atiđa; Medvidović‑Kosanović, Martina; Stanković, AnamarijaCalcium Oxalate and Gallic Acid: Structural Characterization and Process Optimization Toward Obtaining High Contents of Calcium Oxalate Monohydrate and Dihydrate
Crystals, 11 8; 954, 16 (2021)
DOI: 10.3390/cryst11080954 20210815

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Jukić, Jasmina; Korade, Karla; Milisav, Ana-Marija; Delač Marion, Ida; Kovačević, DavorIon-Specific and Solvent Effects on PDADMA–PSS Complexation and Multilayer Formation
Colloids and Interfaces 5, 3; 38, 17 (2021)
DOI: 10.3390/colloids5030038 20210721

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Erceg I, Maltar-Strmečki N, Jurašin DD, Strasser V, Ćurlin M, Lyons DM, Radatović B, Mlinarić NM, Kralj D, Sikirić MDComparison of the Effect of the Amino Acids on Spontaneous Formation and Transformation of Calcium Phosphates
Crystals. 11(7), 792, (2021)
DOI: 10.3390/cryst11070792 20210707

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Dragana Gabrić, Damir Aumiler, Marko Vuletić, Elizabeta Gjorgievska, Marko Blašković, Mitko Mladenov and Verica PavlićThermal Evaluation by Infrared Thermography Measurement of Osteotomies Performed with Er:YAG Laser, Piezosurgery and Surgical Drill—An Animal Study
Materials 2021, 14(11), 3051
DOI: 10.3390/ma14113051 20210603

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Josipović T.M. , Kovačević M, Mateša S, Kostešić M, Matijaković N, Radatović B, Lyons DM, Kralj D, Dutour Sikirić M.The Influence of Different Classes of Amino Acids on Calcium Phosphates Seeded Growth
Materials 2020 27;13(21):E4798
DOI: 10.3390/ma13214798 20201027

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Anže Božič, Antonio ŠiberMechanical design of apertures and the infolding of pollen grain
Proceedings of the National Academy of Sciences, 117 (43) 26600-26607 (2020)
DOI: 10.1073/pnas.2011084117 20201007

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Lucija Krce, Matilda Šprung, Tomislav Rončević, Ana Maravić, Vedrana Čikeš Čulić, Damjan Blažeka, Nikša Krstulović, Ivica AvianiProbing the Mode of Antibacterial Action of Silver Nanoparticles Synthesized by Laser Ablation in Water: What Fluorescence and AFM Data Tell Us
Nanomaterials 2020, 10, 0
DOI: 10.3390/nano10060000 20200529

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Antonio ŠiberIcosadeltahedral Geometry of Geodesic Domes, Fullerenes and Viruses: A Tutorial on the T-Number
Symmetry 2020, 12(4), 556
DOI: 10.3390/sym12040556 20200404

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Maja Kiš, Slobodan Milošević, Ana Vulić, Zoran Herceg, Tomislava Vukušić, Jelka PleadinEfficacy of low pressure DBD plasma in the reduction of T-2 and HT-2 toxin in oat flour
Food Chemistry 316, 126372, (2020)
DOI: 10.1016/j.foodchem.2020.126372 20200206

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Lucija Krce, Matilda Šprung, Ana Maravić, Polona Umek, Krešimir Salamon, Nikša Krstulović, Ivica AvianiBacteria Exposed to Silver Nanoparticles Synthesized by Laser Ablation in Water: Modelling E. coli Growth and Inactivation
Materials 2020,13, 653
DOI: 10.3390/ma13030653 20200201

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Krisztián Gierczik, Tomislava Vukušić, László Kovács, András Székely, Gabriella Szalai, Slobodan Milošević, Gábor Kocsy, Kinga Kutasi, Gábor GalibaPlasma‐activated water to improve the stress tolerance ofbarley
Plasma Processes and Polymers, 17, 3, (2020)
DOI: 10.1002/ppap.201900123 20191223

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Michael Graf, Martina Lihter, Damir Altus, Sanjin Marion, Aleksandra RadenovicTransverse detection of DNA using a MoS2 nanopore
Nano Letters 19, 12, 9075–9083 (2019)
DOI: 10.1021/acs.nanolett.9b04180 20191111

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Natalia Martín-González, Mercedes Hernando-Pérez, Gabriela N Condezo, Marta Pérez-Illana, Antonio Šiber, David Reguera, Philomena Ostapchuk, Patrick Hearing, Carmen San Martín, Pedro J de PabloAdenovirus major core protein condenses DNA in clusters and bundles, modulating genome release and capsid internal pressure
Nucleic Acids Research, 2019
DOI: 10.1093/nar/gkz687 20190809

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M. Kokalj Ladan, P. Ziherl, and A. ŠiberTopology of dividing planar tilings: Mitosis and order in epithelial tissues
Phys. Rev. E 100, 012410
DOI: 10.1103/PhysRevE.100.012410 20190729

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Adela Štimac,Matea Tokić, Ajasja Ljubetič,Tomislav Vuletić, Marina Šekutor,Josip Požar,Katarina Leko,Marko Hanževački,Leo FrkanecRuža FrkanecFunctional Self‐Assembled Nanovesicles Based on β‐Cyclodextrin, Liposomes and Adamantyl Guanidines as Potential Nonviral Gene Delivery Vectors
Org. Biomol. Chem. 174640-4651 (2019)
DOI: 10.1039/c9ob00488b 20190415

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M. Par, I. Repusic, H. Skenderovic, Z. Tarle:Wavelength-dependent light transmittance in resin composites: practical implications for curing units with different emission spectra
Clin Oral Invest (2019)
DOI: 10.1007/s00784-019-02896-y 20190410

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Matej Par, Igor Repusic, Hrvoje Skenderovic, Ognjen Milat, Jelena Spajic, and Zrinka TarleThe effects of extended curing time and radiant energy on microhardness and temperature rise of conventional and bulk-fill resin composites
Clin Oral Invest (2019).
DOI: 10.1007/s00784-019-02807-1 20190111

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A. Lošdorfer Božič, A. ŠiberElectrostatics-Driven Inflation of Elastic Icosahedral Shells as a Model for Swelling of Viruses
Biophys. J. 115, 822 (2018)
DOI: 10.1016/j.bpj.2018.07.032 20180807

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Španović, N., Par, M., Skendrović, H., Bjelovučić, R., Prskalo, K., Tarle, Z.Real-time temperature monitoring during light-curing of experimental composites
Acta Stomatologica Croatica,Volume 52, Issue 2, Pages 87-96
DOI: 10.15644/asc52/2/1 20180601

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Marion, Sanjin ; San Martín, Carmen ; Šiber, AntonioRole of Condensing Particles in Polymer Confinement: A Model for Virus-Packed “Minichromosomes”
Biophysical journal, 113 (2017), 8; 1643-1653
DOI: 10.1016/j.bpj.2017.08.035 20170814

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I. Jurić, V. González-Pérez, J. M. Hibberd, G. Edwards, and N. J. BurroughsSize matters for single-cell C4 photosynthesis in Bienertia
J. Exp. Bot. 68 (2), 255-267 (2017)
DOI: 10.1093/jxb/erw374 20170101Download publication

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Roman D. Bulushev, Sanjin Marion, Ekaterina Petrova, Sebastian J. Davis, Sebastian J. Maerkl, and Aleksandra RadenovicSingle Molecule Localization and Discrimination of DNA–Protein Complexes by Controlled Translocation Through Nanocapillaries
Nano Lett. 16 (12), 7882–7890 (2016)
DOI: 10.1021/acs.nanolett.6b04165 20161107

S. Marion, I. Delač Marion, N. Maltar-Strmečki, S. Josef-Golubić, and T. Vuletić, editorsABC of Physics of Life : book of abstracts
(Institut za fiziku, Hrvatsko biofizičko društvo, Zagreb, 2016)
Download publication (PDF - 9.66 MB)

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K. Serec, S. Dolanski Babić, R. Podgornik and S. TomićEffect of magnesium ions on the structure of DNA thin films: an infrared spectroscopy study
Nucleic Acid Research 44, 8456-8464 (2016)
DOI: 10.1093/nar/gkw696 20160802

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A. ŠiberShapes of minimal-energy DNA ropes condensed in confinement
Sci. Rep. 6, 29012 (8pp) (2016)
DOI: 10.1038/srep29012 20160701

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R. D. Bulushev, S. Marion, and A. RadenovicRelevance of the Drag Force during Controlled Translocation of a DNA–Protein Complex through a Glass Nanocapillary
Nano Letters 15 (10), 7118-7125 (2015)
DOI: 10.1021/acs.nanolett.5b03264 20150922

Danijel GrgičinDynamics and strucutre of deoxyribonucleic acid salt solutions: influence of counterion valency
Institut za fiziku, 2015
Download publication (PDF - 8.82 MB)

I. Delač Marion, D. Grgičin, K. Salamon, S. Bernstorff, and T. VuletićPolyelectrolyte Composite: Hyaluronic Acid Mixture with DNA
Macromolecules 48 (8), 2686–2696 (2015)
DOI: 10.1021/ma502090x 20150415

A. J. Pérez-Berná, S. Marion, F. Javier Chichón, J. J. Fernández, Dennis, C. Winkler, J. L. Carrascosa, A. C. Steven, A. Šiber, and C. San MartínDistribution of DNA-condensing protein complexes in the adenovirus core
Nucleic Acids Res. 43 (8), 4274-4283 (2015)
DOI: 10.1093/nar/gkv187 20150327

S. Marion and A. ŠiberEjecting phage DNA against cellular turgor pressure
Biophys. J. 107 (8), 1924-1929 (2014)
DOI: 10.1016/j.bpj.2014.09.002 20141021

D. Pelc, S. Marion, M. Požek, and M. BasletićRole of microscopic phase separation in gelation of aqueous gelatin solutions
Soft Matter 10, 348-356 (2014)
DOI: 10.1039/C3SM52542B 20140101

D. Grgičin, S. Dolanski Babić, T. Ivek, S. Tomić, and R. PodgornikEffect of magnesium ions on dielectric relaxation in semidilute DNA aqueous solutions
Phys. Rev. E 88, 052703 (8pp) (2013)
DOI: 10.1103/PhysRevE.88.052703 20131105

M. Popović and A. ŠiberLattice-gas Poisson-Boltzmann approach for sterically asymmetric electrolytes
Phys. Rev. E 88, 022302 (5pp) (2013)
DOI: 10.1103/PhysRevE.88.022302 20130808

S. Tomić, D. Grgičin, T. Vuletić, S. Dolanski Babić, T. Ivek, and R. PodgornikDNA in aqueous solutions with repulsive interactions: structure determined on the basis of dielectric spectroscopy measurements
in Bioinformatics and biological physics: proceedings of the scientific meeting, editor V. Paar (HAZU, Zagreb, 2013), pp. 159-176
Download publication

A. Šiber and P. ZiherlMany-body contact repulsion of deformable disks
Phys. Rev. Lett. 110, 214301 (5pp) (2013)
DOI: 10.1103/PhysRevLett.110.214301 20130524

A. Horvatić, I. Dodig, T. Vuletić, D. Pavoković, Z. Hameršak, A. Butorac, and M. CindrićComparison between enhanced MALDI in-source decay by ammonium persulfate and N- or C-terminal derivatization methods for detailed peptide structure determination
Anal. Chem. 85, 3940-3947 (2013)
DOI: 10.1021/ac303436n 20130312

A. L. Božič, A. Šiber, and R. PodgornikStatistical analysis of sizes and shapes of virus capsids and their resulting elastic properties
J. Biol. Phys. 39, 215-228 (2013)
DOI: 10.1007/s10867-013-9302-3 20130301

Completed scientific projects

NanoporeArray: Ion-beam patterned nanopore arrays in polymer supported 2D materials

Provjera inovativnog koncepta PoC
01.06.2016. - 31.05.2017.
Leader: Marko Kralj
Associates: Tomislav Vuletić, Mihovil Jurdana,  
Research areas: Surface physics, Biological physics

QuartzNano: Senzori za kvarcnu mikrovagu unaprijeđeni na nanoskali

Provjera inovativnog koncepta PoC
01.06.2016. - 31.05.2017.
Leader: Tomislav Vuletić
Associates: Marko Kralj, Borna Pielić,
Research areas: Biological physics, Surface physics

Center of Excellence for Advanced Materials and Sensing Devices,
Research unit: Science of Graphene and Related 2D Structures

MZOS / EU strukturni fondovi
10.11.2014. - 01.12.2023.
Leader: Marko Kralj
Associates: Damir Aumiler, Ticijana Ban, Antonio Šiber, Nataša Vujičić, Tomislav Vuletić, Borna Pielić, Valentino Jadriško, Iva Šrut Rakić, Marin Petrović, Borna Radatović, Dino Novko, Manisha Chhikara, Antonio Supina, Ida Delač, Antun Lovro Brkić, Sheikh Muhammad Obaidulla, Sherif Kamal, Ana Senkić, Šimun Mandić, Iva Bogdanović Radović (IRB), Hrvoje Buljan (PMF), Maja Buljan (IRB), Andreja Gajović (IRB), Ivan Halasz (IRB), Predrag Lazić (IRB)
Research areas: Surface physics, Solid state physics, Biological physics, Atomic and molecular physics

Avidin-biotin bond tuned by cryoprotectants

MZOS
01.01.2014. - 31.12.2015.
Leader: Tomislav Vuletić
Associates: P. Hinterdorfer
Research areas: Biological physics

DNA fragments as polyvalent ions regulate lipid multilayers

MZOS
01.01.2014. - 31.12.2015.
Leader: Tomislav Vuletić
Associates: G. Pabst
Research areas: Biological physics

Confined DNA

UKF
15.10.2013. - 14.10.2015.
Leader: Tomislav Vuletić
Research areas: Biological physics

Protein Assisted DNA Monolayer Assembly

UKF
01.01.2008. - 31.12.2009.
Leader: Tomislav Vuletić
Research areas: Biological physics

Energetskom kompeticijom uvjetovani oblici i strukture nanometarskih sustava

MZOS - 035-0352828-2837
01.01.2007. - 31.12.2014.
Leader: Antonio Šiber
Research areas: Biological physics

IF Ⓒ 2017