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. 2019 Jul 18;19:167. doi: 10.1186/s12866-019-1538-z

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© The Author(s). 2019

Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Fig. 1 — Non-invasive 3D dual-color imaging of fluorescent bacteria in murine intestine. 3D imaging combined with 2D imaging and post mortem histopathology allows assessment of the dynamic relationships between different bacterial populations and their locations in organ, tissue and cell level. 2D imaging and histopathology can be used to calibrate and locate the tissues in dynamic real-time settings