DOI: 10.5061/dryad.4mj3pv1
title: Data from: Origin and role of the cerebrospinal fluid bidirectional flow in the central canal

description: The circulation of cerebrospinal fluid (CSF) plays pivotal roles for body
 axis formation and brain development. During embryogenesis, CSF is rich in
 particles and proteins and flows bidirectionally in the central canal. The
 origins of bidirectional flow and its impact on development are unknown.
 Experiments combined with modeling and simulations demonstrate that the
 bidirectionality of CSF flow is generated locally by caudally-polarized
 motile cilia confined to the ventral wall of the central canal. Such
 active bidirectional flow of the CSF accelerates the long-range transport
 of particles propagating rostrally and caudally. In addition, spontaneous
 muscle contractions increase local CSF flow and consequently enhance
 long-range transport of extracellular lipidic particles. Focal ablation of
 the channel connecting brain ventricles to the central canal reduces
 embryo length, indicating that long-range transport contributes to
 embryonic growth. Our study also demonstrates that at this early stage,
 motile cilia ensure the proper formation of the central canal.
description: Figure1_CSFFlow Code to analyze videos of
 beads flowing in CSF to compute the CSf flow profile /TestFile / Dataset
 of all profiles extrema with code to plot them similarly to what is
 performed in figure 1 transparent_reporting
 Transparent reporting from eLife
 Figure2_Cilia Code to analyze dynamics of
 motile cilia from spinning disk fluorescence imaging + dataset of analyzed
 cilia and test file. According to figure 2 of the article
 Figures2And4_DiameterCentralCanal This .zip
 contains the datapoints of central canal diameter for WT embryos and
 various ciliary mutants, as well as the Matlab code to generate the plots
 in fugres 2 and 4. It also contains the code to perform the semi-automatic
 measurement of the central canal diameter, and the entire dataset
 (Confocal 3-D imaging of a dye filling the central canal) for Foxj1a vs WT
 siblings measurements.
 Figure5_FlowVsContraction Datapoints of Flow
 increase vs contraction strength associated to last panel of figure
 5 Figure7_Funnel Datapoints of
 funnel diameter and length associated with the first panels of figure
 7 Figure7_Growth large field
 images of Wt larvae 30 hours after ablation of central canal at embryonic
 stage. The . zip also contains the datapoints of length and angle of all
 embryos, as well as the Matlab code to reproduce associated panels in
 figure 7 Github directory with all the codes used in
 the article Figure3_VelocityProfile
 In order to access and plot the data corresponding to the
 velocity profiles and streamlines in Figure 3. Theoretical and numerical
 predictions are compared to a superposition of in vivo measured velocity
 profiles. Figure6_Simulations Data
 and codes enabling to reproduce the panels B and C1 of the figure 6,
 representing numerical simulations accounting for transport of particles
 coupling diffusion and convection in a model central canal.
 Figure6_Transport Datapoints and theoretical
 curve related to Taylor-Aris diffusion and long-range transport
 measurements. Figure2_Cilia Code
 and test file to analyze cilia motility in the central canal of Tg:B-actin
 arl13-GFP 30 hpf embryos.
 Figure8_Growth_Revised large field images of
 Wt larvae 30 hours after ablation of central canal at embryonic stage. The
 . zip also contains the datapoints of length and angle of all embryos, as
 well as the Matlab code to reproduce associated panels in figure
 7<br> Figure8_Growth.zip
 Figure7_Canals 2Photon Imaging datasets of
 injected dyes and immunohistochemistry revealing the 3 canals connecting
 the brain ventricles to the central canal. The full dataset is shared as
 .sld files (can be opened with Fiji) as well as a few .tif files with
 regions of interest. The measurement of the length and diameter of the
 diencephalospinal canal can be found in this dataset as well. These
 observations and measurements are associated with figure 7 of the main
 manuscript<br> Empty.zip