Data from: In situ analysis of a silver nanoparticle-precipitating Shewanella biofilm by surface enhanced confocal Raman microscopy

Schkolnik G, Schmidt M, Mazza MG, Harnisch F, Musat N

Date Published: January 22, 2016

DOI: http://dx.doi.org/10.5061/dryad.8sc52

 

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Title Proxy component spectra
Description This is a WiTec Project file with spectra obtained under the same conditions as for biofilm measurements, of pure proxy components with colloidal Ag. From M&M: In order to identify the individual SERS spectra of pertinent components of the S. oneidensis biofilm, we first performed SECRaM analysis on several component proxies mixed with colloidal silver (Sigma Aldrich, Hamburg, Germany). The proxy component-colloidal silver mixture was analyzed under the same working conditions as the ones applied for biofilm analysis. The same excitation wavelength, laser intensity and setup were used, however without a Ag/AgCl patch. This was done, separately, for the following expected component proxies: horse heart cytochrome c (hhcytc) (Sigma Aldrich, Hamburg, Germany) in Phosphate buffer solution (PBS) (Roth, Karlsruhe, Germany); riboflavin phosphate (Sigma Aldrich, Hamburg, Germany) in PBS; hhcytc in PBS with excess sodium dithionite (Merck, Darmstadt, Germany); hhcytc in PBS with excess potassium hexacyanoferrate (III) (Sigma Aldrich, Hamburg, Germany); riboflavin phosphate in PBS with excess sodium dithionite; riboflavin phosphate in PBS with excess potassium hexacyanoferrate; an aqueous solution of sodium alginate (Sigma Aldrich, Hamburg, Germany); pure PBS; PBS with sodium dithionite; and PBS with potassium hexacyanoferrate. Sodium dithionite and potassium hexacyanoferrate, respectively, were used to obtain reduced and oxidized cytochrome and flavin species.
Download Proxy component spectra.WIP (673.6 Kb)
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Title CRM image scan of 6 day old biofilm, cosmic ray corrected
Description WiTec Project file of a CRM image scan of the 6 day old Shewanella oneidensis biofilm. From M&M: The measurement was performed on a WITec alpha300 confocal Raman microscope, using a 50 µm pinhole and a Zeiss LD plan-NEOFLUAR 20×/0.4 corr air objective with coverslip correction. 20× magnification was used in order to keep as many bacteria as possible in the focal plane while still resolving individual bacteria. The excitation wavelength was 532 nm, with laser power of 3 mW at the focal plane. The Raman detector was a newton EMCCD camera cooled to -60o C with a 600 g/mm grating. Integration time was 1 second and lateral resolution 2 pixel/µm.
Download 6d CRM2 VidIm14 Scan9 CRR.WID (403.2 Mb)
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Title CRM image scan of 6 day old biofilm, cosmic ray corrected, exported in ASCII format
Description WiTec Project file of a CRM image scan of the 6 day old Shewanella oneidensis biofilm. From M&M: The measurement was performed on a WITec alpha300 confocal Raman microscope, using a 50 µm pinhole and a Zeiss LD plan-NEOFLUAR 20×/0.4 corr air objective with coverslip correction. 20× magnification was used in order to keep as many bacteria as possible in the focal plane while still resolving individual bacteria. The excitation wavelength was 532 nm, with laser power of 3 mW at the focal plane. The Raman detector was a newton EMCCD camera cooled to -60o C with a 600 g/mm grating. Integration time was 1 second and lateral resolution 2 pixel/µm. The file was exported in ASCII format.
Download Min_CRM2_6d_ac_z0_VidIm14_ImageScan_009_S...RR.txt (1.310 Gb)
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Title CRM image scan of 9 day old biofilm, cosmic ray corrected
Description WiTec Project file of a CRM image scan of the 9 day old Shewanella oneidensis biofilm. From M&M: The measurement was performed on a WITec alpha300 confocal Raman microscope, using a 50 µm pinhole and a Zeiss LD plan-NEOFLUAR 20×/0.4 corr air objective with coverslip correction. 20× magnification was used in order to keep as many bacteria as possible in the focal plane while still resolving individual bacteria. The excitation wavelength was 532 nm, with laser power of 3 mW at the focal plane. The Raman detector was a newton EMCCD camera cooled to -60o C with a 600 g/mm grating. Integration time was 1 second and lateral resolution 2 pixel/µm.
Download 9d CRM2 VidIm15 Scan2 CRR.WID (403.2 Mb)
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Title CRM image scan of 9 day old biofilm, cosmic ray corrected, exported in ASCII format
Description WiTec Project file of a CRM image scan of the 9 day old Shewanella oneidensis biofilm. From M&M: The measurement was performed on a WITec alpha300 confocal Raman microscope, using a 50 µm pinhole and a Zeiss LD plan-NEOFLUAR 20×/0.4 corr air objective with coverslip correction. 20× magnification was used in order to keep as many bacteria as possible in the focal plane while still resolving individual bacteria. The excitation wavelength was 532 nm, with laser power of 3 mW at the focal plane. The Raman detector was a newton EMCCD camera cooled to -60o C with a 600 g/mm grating. Integration time was 1 second and lateral resolution 2 pixel/µm. The file was exported in ASCII format.
Download Min_CRM2_9d_ac_z0_VidIm15_Scan_002_Spec.D...RR.txt (1.310 Gb)
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Title CRM image scan of 35 day old biofilm, cosmic ray corrected
Description WiTec Project file of a CRM image scan of the 35 day old Shewanella oneidensis biofilm. From M&M: The measurement was performed on a WITec alpha300 confocal Raman microscope, using a 50 µm pinhole and a Zeiss LD plan-NEOFLUAR 20×/0.4 corr air objective with coverslip correction. 20× magnification was used in order to keep as many bacteria as possible in the focal plane while still resolving individual bacteria. The excitation wavelength was 532 nm, with laser power of 3 mW at the focal plane. The Raman detector was a newton EMCCD camera cooled to -60o C with a 600 g/mm grating. Integration time was 1 second and lateral resolution 2 pixel/µm.
Download 35d CRM2 Scan1 CRR.WID (403.2 Mb)
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Title CRM image scan of 35 day old biofilm, cosmic ray corrected, exported in ASCII format
Description WiTec Project file of a CRM image scan of the 35 day old Shewanella oneidensis biofilm. From M&M: The measurement was performed on a WITec alpha300 confocal Raman microscope, using a 50 µm pinhole and a Zeiss LD plan-NEOFLUAR 20×/0.4 corr air objective with coverslip correction. 20× magnification was used in order to keep as many bacteria as possible in the focal plane while still resolving individual bacteria. The excitation wavelength was 532 nm, with laser power of 3 mW at the focal plane. The Raman detector was a newton EMCCD camera cooled to -60o C with a 600 g/mm grating. Integration time was 1 second and lateral resolution 2 pixel/µm. The file was exported in ASCII format.
Download 35d_CRM2_Scan1_CRR.txt (1.310 Gb)
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When using this data, please cite the original publication:

Schkolnik G, Schmidt M, Mazza MG, Harnisch F, Musat N (2015) In situ analysis of a silver nanoparticle-precipitating Shewanella biofilm by surface enhanced confocal Raman microscopy. PLOS ONE 10(12): e0145871. http://dx.doi.org/10.1371/journal.pone.0145871

Additionally, please cite the Dryad data package:

Schkolnik G, Schmidt M, Mazza MG, Harnisch F, Musat N (2015) Data from: In situ analysis of a silver nanoparticle-precipitating Shewanella biofilm by surface enhanced confocal Raman microscopy. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.8sc52
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