The reconstruction of the cell lineage tree of early zebrafish embryogenesis requires the use of in-vivo microscopy imaging and image processing strategies. Second (SHG) and third harmonic generation (THG) microscopy observations in unstained zebrafish embryos allows to detect cell divisions and cell membranes from 1-cell to 1K-cell stage. In this article, we present an ad-hoc image processing pipeline for cell tracking and cell membranes segmentation enabling the reconstruction of the early zebrafish cell lineage tree until the 1K-cell stage. This methodology has been used to obtain digital zebrafish embryos allowing to generate a quantitative description of early zebrafish embryogenesis with minute temporal accuracy and µm spatial resolution [1].
['Miguel A. Luengo-Oroz', 'Thierry Savy', 'Jose L. Rubio', 'Louise Duloquin', 'Emmanuel Faure', 'Nicolas Olivier', 'Maria J. Ledesma-Carbayo', 'Delphine Débarre', 'Paul Bourgine', 'E. Beaurepaire', 'Nadine Peyriéras', 'Andres Santos']
Processing pipeline for digitalizing the lineage tree of early zebrafish embryogenesis from multiharmonic imaging