Hepatitis B virus (HBV) and hepatitis delta virus (HDV) interplay was investigated by examining liver and serum samples from 21 coinfected and 22 HBV-monoinfected patients with chronic liver disease. Different real-time PCR assays were applied to evaluate intrahepatic amounts of HBV DNA, covalently closed circular DNA (cccDNA), pregenomic RNA (pgRNA), pre-S/S RNAs, and HDV RNA. Besides HBV DNA and HDV RNA levels, HBsAg concentrations in the sera were also determined. HDV-coinfected cases showed significantly lower median levels of serum HBV DNA (؊5 log), intrahepatic relaxed-circular DNA (؊2 log), and cccDNA (؊2 log) than those of HBV-monoinfected cases. Interestingly, pgRNA and pre-S/S RNA amounts were significantly lower (both ؊1 log) in HDV-positive patients, whereas serum HBsAg concentrations were comparable between the two patient groups. Pre-S/S RNA and HBsAg amounts per cccDNA molecule were higher in HDV-positive patients (3-fold and 1 log, respectively), showing that HBV replication was reduced, whereas synthesis of envelope proteins was not specifically decreased. The ratios of cccDNA to intracellular total HBV DNA showed a larger proportion of cccDNA molecules in HDV-positive cases. For these patients, both intrahepatic and serum HDV RNA amounts were associated with cccDNA but not with HBsAg or HBV DNA levels. Finally, HBV genomes with large deletions in the basal core promoter/precore region were detected in 5/21 HDV-positive patients but in no HDV-negative patients and were associated with lower viremia levels. These findings provide significant information about the interference exerted by HDV on HBV replication and transcription activities in the human liver.Hepatitis delta virus (HDV) is a worldwide diffuse pathogen commonly associated with severe forms of liver disease (9,21,22,35). HDV can establish infection only in individuals with continuing hepatitis B virus (HBV) infection, since it requires obligatory helper functions provided by HBV for in vivo infection. In particular, HDV needs to borrow the envelope proteins produced by HBV, and consequently, the two viruses share the same outer coats, consisting of the HBV surface antigen (HBsAg) (21,35). In spite of this, HDV and HBV are completely different in terms of genome replication, with both showing several aspects that make their life cycles nearly unique among agents infecting animals. Very briefly, HDV is a small RNA virus with a single-stranded and circular genome of approximately 1,700 nucleotides (nt) that is replicated using a host RNA polymerase and contains a ribozyme able to selfcleave and self-ligate the circular HDV genome (30). In contrast, HBV is a closed, circular, partially double-stranded DNA virus of 3.2 kb containing four partially overlapping open reading frames that replicates via the formation of a circular covalently closed DNA (cccDNA) which serves as a template for the production of virus mRNAs, including an RNA pregenome that is reverse transcribed in the cytoplasm of hepatocytes for the synthesis of the DNA molecule...