--- res: bibo_abstract: - Roots navigate through soil integrating environmental signals to orient their growth. The Arabidopsis root is a widely used model for developmental, physiological and cell biological studies. Live imaging greatly aids these efforts, but the horizontal sample position and continuous root tip displacement present significant difficulties. Here, we develop a confocal microscope setup for vertical sample mounting and integrated directional illumination. We present TipTracker – a custom software for automatic tracking of diverse moving objects usable on various microscope setups. Combined, this enables observation of root tips growing along the natural gravity vector over prolonged periods of time, as well as the ability to induce rapid gravity or light stimulation. We also track migrating cells in the developing zebrafish embryo, demonstrating the utility of this system in the acquisition of high-resolution data sets of dynamic samples. We provide detailed descriptions of the tools enabling the easy implementation on other microscopes.@eng bibo_authorlist: - foaf_Person: foaf_givenName: Daniel foaf_name: Von Wangenheim, Daniel foaf_surname: Von Wangenheim foaf_workInfoHomepage: http://www.librecat.org/personId=49E91952-F248-11E8-B48F-1D18A9856A87 orcid: 0000-0002-6862-1247 - foaf_Person: foaf_givenName: Robert foaf_name: Hauschild, Robert foaf_surname: Hauschild foaf_workInfoHomepage: http://www.librecat.org/personId=4E01D6B4-F248-11E8-B48F-1D18A9856A87 orcid: 0000-0001-9843-3522 - foaf_Person: foaf_givenName: Matyas foaf_name: Fendrych, Matyas foaf_surname: Fendrych foaf_workInfoHomepage: http://www.librecat.org/personId=43905548-F248-11E8-B48F-1D18A9856A87 orcid: 0000-0002-9767-8699 - foaf_Person: foaf_givenName: Vanessa foaf_name: Barone, Vanessa foaf_surname: Barone foaf_workInfoHomepage: http://www.librecat.org/personId=419EECCC-F248-11E8-B48F-1D18A9856A87 orcid: 0000-0003-2676-3367 - foaf_Person: foaf_givenName: Eva foaf_name: Benková, Eva foaf_surname: Benková foaf_workInfoHomepage: http://www.librecat.org/personId=38F4F166-F248-11E8-B48F-1D18A9856A87 orcid: 0000-0002-8510-9739 - foaf_Person: foaf_givenName: Jirí foaf_name: Friml, Jirí foaf_surname: Friml foaf_workInfoHomepage: http://www.librecat.org/personId=4159519E-F248-11E8-B48F-1D18A9856A87 orcid: 0000-0002-8302-7596 bibo_doi: 10.7554/eLife.26792 bibo_volume: 6 dct_date: 2017^xs_gYear dct_identifier: - UT:000404728300001 dct_language: eng dct_publisher: eLife Sciences Publications@ dct_title: Live tracking of moving samples in confocal microscopy for vertically grown roots@ ...