RT Journal Article
SR Electronic
T1 Single organoid RNA-sequencing reveals high organoid-to-organoid variability
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2021.11.22.469588
DO 10.1101/2021.11.22.469588
A1 Gehling, Kristin
A1 Parekh, Swati
A1 Schneider, Farina
A1 Kirchner, Marcel
A1 Kondylis, Vangelis
A1 Nikopoulou, Chrysa
A1 Tessarz, Peter
YR 2021
UL http://biorxiv.org/content/early/2021/11/22/2021.11.22.469588.abstract
AB Over the last decades, organoids have been established from the majority of tissue resident stem and iPS cells. They hold great promise for our understanding of mammalian organ development, but also for the study of disease or even personalized medicine. In recent years, several reports hinted at intraculture organoid variability, but a systematic analysis of such a heterogeneity has not been performed before. Here, we used RNA-seq of individual organoids to address this question. Importantly, we find that batch-to-batch variation is very low, even when prepared by different researchers. On the other hand, there is organoid-to-organoid variability within a culture. Using differential gene expression, we did not identify specific pathways that drive this variability, pointing towards possible effects of the microenvironment within the culture condition. Taken together, our study provides a framework for organoid researchers to properly consider experimental design.Competing Interest StatementThe authors have declared no competing interest.