We have had good results with FITC-functionalized SiO2 NPs using micro-emulsions, but rhodamine derivatives give large sizes (about 200 nm) and usually as agglomerates.
Thank you al for your answers. We did try using PEG as coating to prevent agglomeration during the synthesis but it seems that rhodamine might react with the polymer and give some non-nanoparticulate material (seen in TEM images).
I will try the click chemistry routes and will tell you the results.
I hope you can definitely get a solution if you scan the nano particle by Small Angle X-ray Scattering (SAXS). IT GIVES MOST STATISTICAL AVERAGE PARTICLE SIZE, So it is the best way to confirm the size.
Try silane coupling chemistry with either (3-amino propyl)-triethoxy-silane (APTES) or (3-mercaptopropyl)-trimethoxy-silane (MPTMS). Mptms can couple the sulfur specific region of the isothiocyanate to SiO2 surface while Aptes can couple the amino region of the isothiocyanate to SiO2.
Please proceed for the SAXS scan of the nano system to have an clear idea on size scale of your expected particle size and if any difficulty ask me for any help in this regard with out any hesitation. I hope you will resolve this problem in a much meaningful and judicious manner.