Lei Wei and Alexander Ploss publish new research on how HBV establishes chronic infections in human cells

Research
Posted on March 11, 2021

Wei and Ploss have dissected the steps taken by cellular proteins to convert Hepatitis B virus (HBV) relaxed circular DNA (rcDNA) into closed circular DNA (cccDNA), a process that takes place in the nuclei of infected cells and is critical to the establishment of chronic HBV infection. The repair steps of the plus strand (upper panel) and the minus strand (lower panel) are shown. A viral protein called Pol is linked to the minus strand, while an RNA primer (red line) is linked to the plus strand. Image courtesy of Lei Wei (Ploss lab).

Viruses have been with us, shaping our lives, societies and economies for millennia. While some viruses rapidly explode onto the world stage, others smolder in our communities for decades, shattering lives but making few headlines. Hepatitis B virus (HBV) hasn’t caused any nationwide lockdowns or stock market crashes because it is slow to spread from person to person and is rarely immediately fatal. It is nonetheless incredibly damaging because it can establish lifelong chronic infection with profound consequences for its victims.

“An estimated 2 billion people have been exposed to HBV, of whom 250-400 million are chronically infected,” said Ploss, an Associate Professor in the Department of Molecular Biology at Princeton University.Currently, there is no cure for chronic HBV infection, and patients need to be on a lifelong antiviral regimen. Approximately 887,000 individuals die each year from HBV-related liver diseases or liver cancer.”

Human liver cell lines (green, with blue nuclei) infected with HBV express an HBV protein (in red) in this image captured by immunofluorescence microscopy. Image courtesy of Stephanie Maya (Ploss lab).

Scientists are striving to better understand HBV’s life cycle in hopes of finding a way to prevent the virus from establishing damaging chronic infections.

Central to HBV replication is the formation of covalently closed circular DNA (cccDNA) from relaxed circular DNA (rcDNA) which is carried into the host cell by the virus during the initial infection,” explained Ploss. “We have recently demonstrated that HBV relies on five host proteins – namely PCNA, RFC complex, POLδ, FEN-1, and LIG1 – that are necessary and sufficient for this conversion step.”

As its name implies, rcDNA is a loop of DNA. DNA is a molecule made up of nucleotides arranged in linear fashion along paired, complementary strands. The sequence of nucleotides on one strand encodes the instructions for making a protein—that is, a gene—while the other strand is its mirror image. Whereas human cellular DNA contains over 20,000 genes, HBV’s DNA genome only contains four. None of the viral proteins made from these genes is required for the conversion of rcDNA to cccDNA. Instead, the virus coopts cellular proteins to accomplish this and other steps of viral replication.

A  key feature of HBV rcDNA is that each of its two strands contains a gap in its nucleotide sequence. One strand, called the plus strand, has a gap that is considerably larger than and offset from the gap on the other, minus strand. Cells perceive gaps in DNA as damage that needs to be filled in and repaired. The cellular proteins that carry out DNA repair can’t tell the difference between viral DNA and cellular DNA, so they set to work “repairing” rcDNA as soon as it arrives in the nucleus. This repair process converts rcDNA into an intact circle of double-stranded DNA (that is, cccDNA) that can be maintained in the cell’s nucleus.

Postdoctoral fellow Lei Wei wanted to understand how this repair process takes place in detail. To investigate this, he developed a method to monitor the process of repair taking place on rcDNA. He then identified what steps are involved in repair of each individual strand, tracked the order in which they are completed, and determined which cellular proteins are needed for each step.

The experiments showed that conversion of the plus strand into a continuous circle happens rapidly and requires all five of the cellular proteins that they’d previously identified, working in concert. In contrast, repair of the minus strand requires only two of the five proteins (FEN-1 and LIG1) but is slower because there is a viral protein attached to one end of the minus strand that must be removed before the nucleotide gap can be sealed.

“In this paper, Wei and Ploss provide a compelling story in elucidating the cellular machinery that is essential for converting the incoming HBV genome into the cccDNA,” said Dr. T. Jake Liang, an NIH Distinguished Investigator in the Liver Diseases Branch who is an expert on HBV and related viruses. “This work offers not only important insights into the biochemical pathway of cccDNA biogenesis but also potential strategies to target cccDNA for therapeutic development.”

Furthering that goal, the Princeton researchers showed that two compounds targeting cellular proteins could disrupt rcDNA conversion to cccDNA in test tubes. Wei and Ploss are hopeful that future studies will identify drugs that work in the human body.

 Our findings, biochemical approaches, and the novel reagents that we generated and engineered, open the door to providing an in depth understanding how this major human virus establishes persistence in host cells,” said Ploss.

Funding: This work was supported in part by grants from the National Institutes of Health (R01 AI138797 and R01 AI153236), a Research Scholar Award from the American Cancer Society (RSG-15-048-01-MPC), a Burroughs Wellcome Fund Award for Investigators in Pathogenesis to A.P.; a postdoctoral fellowship award from New Jersey Commission on Cancer Research (NJCCR) (DFHS17PPC011) to L.W.; and by funding from Princeton University.

Citation: Lei Wei and Alexander Ploss. Hepatitis B virus cccDNA is formed through distinct repair processes on each strand. Nature Communications. 2020.