Both authors contributed equally to this work.
3-D analysis of bacterial cell-(iron)mineral aggregates formed during Fe(II) oxidation by the nitrate-reducing Acidovorax sp. strain BoFeN1 using complementary microscopy tomography approaches
Article first published online: 14 MAY 2014
© 2014 John Wiley & Sons Ltd
Volume 12, Issue 4, pages 340–361, July 2014
How to Cite
Schmid, G., Zeitvogel, F., Hao, L., Ingino, P., Floetenmeyer, M., Stierhof, Y.-D., Schroeppel, B., Burkhardt, C. J., Kappler, A. and Obst, M. (2014), 3-D analysis of bacterial cell-(iron)mineral aggregates formed during Fe(II) oxidation by the nitrate-reducing Acidovorax sp. strain BoFeN1 using complementary microscopy tomography approaches. Geobiology, 12: 340–361. doi: 10.1111/gbi.12088
- Issue published online: 13 JUN 2014
- Article first published online: 14 MAY 2014
- Manuscript Accepted: 8 APR 2014
- Manuscript Received: 31 OCT 2013
- NIGMS. Grant Number: P41-GM103311
- DFG Emmy-Noether program. Grant Number: OB 362/1-1
Appendix S1 Descriptions of the microscopy tomography approaches.
Fig. S1 O-1s reference spectra (normalized to 1 nm) of an Fe(III)-(oxyhydr)oxide, polysaccharide, and protein (Stewart-Ornstein et al., 2007) that were used to fit the datasets of air-dried BoFeN1 samples.
Fig. S2 O-1s reference spectra (normalized to 1 nm) of water, Fe(III)-(oxyhydr)oxide, and protein used for SVD for the dataset of the hydrated BoFeN1 sample.
Fig. S3 Results of focused ion beam/scanning electron microscopy (FIB/SEM) tomography: single original blockface image (A) and 3-D representation of the entire volume (performed with Chimera) (B) (scale bar 2 µm).
Fig. S4 Orthogonal views of the transmission electron microscopy (TEM) tomography reconstruction: (A) yz-plane (plane perpendicular to tilt axis; arrow indicates the direction of the optical axis); (B) xz-plane; (C) xy-plane (perpendicular to optical axis) (scale bar 500 nm).
Fig. S5 Colored 3-D component maps of the STXM dataset for the air-dried BoFeN1 cell at an early stage of Fe(II) oxidation with overlay of the different component maps.
Fig. S6 Colored 3-D component maps with overlay of the STXM dataset for a BoFeN1 cell after complete Fe(II) oxidation.
Fig. S7 Colored 3-D component maps with overlay of the STXM dataset of the wet prepared BoFeN1 sample after complete Fe(II) oxidation.
Table S1 Tabulated values (results and intermediate steps) of the quantitative calculation of the individual chemical component masses within the analyzed volumes; values from STXM tomography datasets of the air-dried BoFeN1 samples at an early stage and after complete Fe(II) oxidation, also for the hydrated BoFeN1 sample after complete Fe(II) oxidation.
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