DOI: 10.5061/dryad.vq83bk3z8
title: Imaging dataset from: Longitudinal tracking of acute kidney injury reveals injury propagation along the nephron

description: Acute kidney injury (AKI) is a risk factor for chronic kidney disease
 (CKD), but the cellular mechanisms leading to impaired tubular recovery
 and subsequent AKI-CKD-transition are not yet fully understood. In this
 study, we combined transgenic mice to monitor proliferation in vivo, a
 novel injury model of AKI, in which ischemia-reperfusion injury (IRI) was
 induced in half of the kidney (partial-IRI), and serial intravital
 2-photon imaging via an Abdominal Imaging Window (AIW) to track tissue
 remodeling in post- and non-ischemic kidney regions longitudinally over 3
 weeks. Our results and novel findings are presented in the associated
 pre-print "Longitudinal tracking of acute kidney injury reveals
 injury propagation along the nephron".  In this dataset, we
 provide the imaging data which we acquired during the study. Overall, the
 dataset consists of: #1: serial intravital imaging via 2-photon microscopy
 and genetic identification of proliferating cells in kidneys undergoing
 partial IRI; #2: serial intravital imaging via 2-photon microscopy and
 genetic identification of proliferating cells of control, uninjured
 kidneys; #3: intravital imaging of kidney epithelial cells during
 intravenous injection of a fluorescent bolus to determine the identity of
 tubular segments across the nephron; #4: intravital imaging of and genetic
 identification of proliferating cells after selective laser injury of S1
 proximal tubule cells; #5 in vivo and ex-vivo imaging of kidney and kidney
 slices after VCAM1 staining. The data descriptors provide detailed
 guidelines on how to place individual imaging files in the context of the
 pathophysiological states used in the study.  Our goal is to
 provide an organized and accessible unique and unprocessed in vivo imaging
 dataset that documents in vivo tubule cell remodeling in the mouse kidney
 longitudinally and during physiological and pathological
 conditions. Sharing of this dataset ensures reproducing and
 expanding of our preclinical findings of tubule injury and (failed)
 recovery during AKI. Furthermore, this dataset may also be utilized for
 teaching purposes, as the combination of fluorescent imaging techniques
 allows the detailed visualization of kidney anatomy and physiology over
 multiple conditions.
description: For a
 detailed description of the surgical methods, the disease model, the
 protocol for in
 vivo imaging of a
 mouse kidney longitudinally through an implanted abdominal imaging window,
 we redirect readers to the linked preprint article. More specifically, the
 Materials and Methods section and Fig.1 provide a detailed descriptive and
 visual overview of the experimental protocol.  Details of the imaging protocol are described both in the associated preprint article and in the data descriptors (ReadMe) files associated with each dataset.  In addition, we provided the analytical codeset used to process quantitative information and generate the results presented in the associated study on zenodo (https://zenodo.org/record/7892132).
description: Individual imaging files are provided in tiff
 format. We recommend users to open the images and navigate through the
 dataset using the free software FIJI (doi:10.1038/nmeth.2019).