Document Type
Journal Article
Publication Title
Cell Genomics
Volume
3
Issue
5
Publisher
Elsevier
School
School of Medical and Health Sciences
RAS ID
55032
Funders
National Health and Medical Research Council
Grant Number
NHMRC Numbers: APP1031330, APP1087125, APP1160323, APP1194141, APP1042465, APP1041760, APP1156511, APP1122227, APP1154524
Abstract
Current approaches to staging chronic liver diseases have limited utility for predicting liver cancer risk. Here, we employed single-nucleus RNA sequencing (snRNA-seq) to characterize the cellular microenvironment of healthy and pre-malignant livers using two distinct mouse models. Downstream analyses unraveled a previously uncharacterized disease-associated hepatocyte (daHep) transcriptional state. These cells were absent in healthy livers but increasingly prevalent as chronic liver disease progressed. Copy number variation (CNV) analysis of microdissected tissue demonstrated that daHep-enriched regions are riddled with structural variants, suggesting these cells represent a pre-malignant intermediary. Integrated analysis of three recent human snRNA-seq datasets confirmed the presence of a similar phenotype in human chronic liver disease and further supported its enhanced mutational burden. Importantly, we show that high daHep levels precede carcinogenesis and predict a higher risk of hepatocellular carcinoma development. These findings may change the way chronic liver disease patients are staged, surveilled, and risk stratified.
DOI
10.1016/j.xgen.2023.100301
Creative Commons License
This work is licensed under a Creative Commons Attribution-Noncommercial-No Derivative Works 4.0 License.
Comments
Carlessi, R., Denisenko, E., Boslem, E., Köhn-Gaone, J., Main, N., Bakar, N. D. B. A., ... & Tirnitz-Parker, J. E. (2023). Single-nucleus RNA sequencing of pre-malignant liver reveals disease-associated hepatocyte state with HCC prognostic potential. Cell Genomics, 3(5), article 100301. https://doi.org/10.1016/j.xgen.2023.100301