Fluorescent probes, noble metal nanoparticles and their nanocomposites : detection of nucleic acids and other biological targets
Julkaistu sarjassa
JYU dissertationsTekijät
Päivämäärä
2021Tekijänoikeudet
© The Author & University of Jyväskylä
This thesis covers the usage of fluorescent probes, noble metal nanoparticles, and their nanocomposites for applications in biological research. The use of cyanine dyes for nucleic acid detection was focused on with presentation of synthesis, characterization of the new compounds, as well as their interactions with nucleic acids, and their applications. New cyanine dyes were synthesized to produce covalently linkable derivatives based on the chemical structure of SYBR Green II. One of the new compounds showed sensitivity to RNA above its commercial predecessor. These molecules were used to detect the viral genome of echovirus 1 using in vitro assays. Furthermore, the possibility of improving the photophysical properties of the dyes was explored by synthesizing another set of molecules. With simple changes on the dye chromophore, significant improvement in the brightness, nucleic acid binding, and photostability were achieved. Based on this series, some conclusions on the structure – activity relationship were made for these dyes.
In the second part of the thesis, gold nanoclusters were studied as a potential solid support for conjugation of fluorescent probes. A synthesis for a new size of monolayer para-mercaptobenzoic acid -protected gold nanocluster was developed and characterized with PAGE and NMR spectroscopy. These clusters were then used to conjugate an azatriangelium dye to the cluster surface. The developed nanocomposite showed pH sensitivity with a fluorescence turn-on happening at a low pH. This was found to be due to the electrostatic binding and release of the dye from the quenching nanocluster proximity, due to the protonation of the ligand layer of the cluster. The literature review covers some of the advances in application of such nanocomposites employing larger, plasmonic noble metal nanoparticles. While the presented experimental work does not contain their use, they represent the logical next step for this research, due to their potential for further enhancing fluorescence detection.
...
Julkaisija
Jyväskylän yliopistoISBN
978-951-39-8559-2ISSN Hae Julkaisufoorumista
2489-9003Julkaisuun sisältyy osajulkaisuja
- Artikkeli I: Lahtinen, T., Hulkko, E., Sokołowska, K., Tero, T.-R., Saarnio, V., Lindgren, J., . . . Lehtovaara, L. (2016). Covalently linked multimers of gold nanoclusters Au102(p-MBA)44 and Au∼250(p-MBA)n. Nanoscale, 8 (44), 18665-18674. DOI: 10.1039/C6NR05267C
- Artikkeli II: Sokolowska, K., Malola, S., Lahtinen, M., Saarnio, V., Permi, P., Koskinen, K., . . . Lahtinen, T. (2019). Towards Controlled Synthesis of Water-Soluble Gold Nanoclusters : Synthesis and Analysis. The Journal of Physical Chemistry C, 123 (4), 2602-2612. DOI: 10.1021/acs.jpcc.8b11056
- Artikkeli III: Saarnio, Ville K.; Salorinne, Kirsi; Ruokolainen, Visa P.; Nilsson, Jesper R.; Tero, Tiia-Riikka; Oikarinen, Sami; Wilhelmsson, L. Marcus; Lahtinen, Tanja M.; Marjomäki, Varpu S. (2020). Development of functionalized SYBR green II related cyanine dyes for viral RNA detection. Dyes and Pigments, 177, 108282. DOI: 10.1016/j.dyepig.2020.108282
- Artikkeli IV: Saarnio, Ville; Alaranta, Johanna and Lahtinen, Tanja. Systematic study of SYBR Green chromophore reveals major improvement with one heteroatom difference. Submitted manuscript.
- Artikkeli V: Hulkko, Eero; Lahtinen, Tanja; Marjomäki, Varpu; Pohjolainen, Emmi; Saarnio, Ville; Sokołowska, Karolina; Ajitha, Ardra; Kuisma, Mikael; Lehtovaara, Lauri; Groenhof, Gerrit; Häkkinen, Hannu and Pettersson, Mika. Link and release - Coupling of a gold nanocluster with a fluorophore for intracellular pH imaging. Submitted manuscript.
Asiasanat
Metadata
Näytä kaikki kuvailutiedotKokoelmat
- JYU Dissertations [775]
- Väitöskirjat [3431]
Lisenssi
Samankaltainen aineisto
Näytetään aineistoja, joilla on samankaltainen nimeke tai asiasanat.
-
Development of functionalized SYBR green II related cyanine dyes for viral RNA detection
Saarnio, Ville K.; Salorinne, Kirsi; Ruokolainen, Visa P.; Nilsson, Jesper R.; Tero, Tiia-Riikka; Oikarinen, Sami; Wilhelmsson, L. Marcus; Lahtinen, Tanja M.; Marjomäki, Varpu S. (Elsevier, 2020)Fluorescent probes for sensing nucleic acids have found widespread use in the field of cell and molecular biology. However, probes combined with potential for post-synthetic conjugation, e.g. for intra-endosomal measurements ... -
Optimizing the SYBR green related cyanine dye structure to aim for brighter nucleic acid visualization
Alaranta, Johanna M.; Truong, Khai-Nghi; Matus, María F.; Malola, Sami A.; Rissanen, Kari T.; Shroff, Sailee S.; Marjomäki, Varpu S.; Häkkinen, Hannu J.; Lahtinen, Tanja M. (Elsevier BV, 2022)In recent years, the studies of RNA and its use for the development of RNA based vaccines have increased drastically. Although cyanine dyes are commonly used probes for studying nucleic acids, in a wide range of applications, ... -
Modifying the terminal phenyl group of monomethine cyanine dyes as a pathway to brighter nucleic acid probes
Alaranta, Johanna M.; Valkonen, Arto M.; Shroff, Sailee S.; Marjomäki, Varpu S.; Rissanen, Kari; Lahtinen, Tanja M. (Royal Society of Chemistry (RSC), 2024)Three novel monomethine cyanine dyes were synthesized carrying electron donating groups to obtain even brighter nucleic acids probes. Photophysical properties of these dyes were evaluated with DNA and selected dyes with ... -
Tailoring the interaction between a gold nanocluster and a fluorescent dye by cluster size : creating a toolbox of range-adjustable pH sensors
Pyo, Kyunglim; Matus, María Francisca; Malola, Sami; Hulkko, Eero; Alaranta, Johanna; Lahtinen, Tanja; Häkkinen, Hannu; Pettersson, Mika (Royal Society of Chemistry (RSC), 2022)We present a novel strategy for tailoring the fluorescent azadioxatriangulenium (KU) dye-based pH sensor to the target pH range by regulating the pKa value of the gold nanoclusters. Based on the correlation between the pKa ... -
Covalent and non-covalent coupling of a Au102 nanocluster with a fluorophore : energy transfer, quenching and intracellular pH sensing
Hulkko, Eero; Lahtinen, Tanja; Marjomäki, Varpu; Pohjolainen, Emmi; Saarnio, Ville; Sokolowska, Karolina; Ajitha, Ardra; Kuisma, Mikael; Lehtovaara, Lauri; Groenhof, Gerrit; Häkkinen, Hannu; Pettersson, Mika (Royal Society of Chemistry (RSC), 2021)Interactions between an atomically precise gold nanocluster Au102(p-MBA)44 (p-MBA = para mercaptobenzoic acid) and a fluorescent organic dye molecule (KU, azadioxatriangulenium) are studied. In solution, the constituents ...
Ellei toisin mainittu, julkisesti saatavilla olevia JYX-metatietoja (poislukien tiivistelmät) saa vapaasti uudelleenkäyttää CC0-lisenssillä.