Tang Cheng, Lan-DaoLiang, Zhang-HuanRong, Ma Jing, YueHua*.
Transcriptome Plosone,2013,8(7),e71051. (Impact factor 3.73, SCI)
Abstract: Duck is an economically important poultry and animal model for human viral hepatitisB. However,the molecular mechanisms underlying host-virus interaction remainunclear because of limited information on the duck genome. This study aims to characterize the duck normal liver transcriptome and to identify the differentially expressed transcripts at 24 h after duck hepatitis A virus genotype C (DHAV-C) infection using Illumina-Solexa sequencing. After removalof low-quality sequences and assembly, a total of 52,757 unigenes was obtained from the normal liver group. Further blast analysis showed that 18,918 unigenes successfully matched the known genes in the database. GO analysis revealed that 25,116 unigenes took part in 61 categories of biological processes, cellular components, and molecular functions. Among the 25 clusters of orthologous group categories (COG), the cluster for "General function prediction only"represented the largest group, followed by "Transcription" and"Replication, recombination, and repair." KEGG analysis showed that17,628 unigenes were involved in 301 pathways. Through comparison of normal and infected transcriptome data, we identified 20 significantly differentially expressed unigenes, which were further confirmed by real-time polymerase chain reaction. Of the 20 unigenes, nine matched the known genes in the database,including three up-regulated genes (virus replicase polyprotein, LRRC3B, andPCK1) and six down-regulated genes (CRP, AICL-like 2, L1CAM, CYB26A1, CHAC1,and ADAM32). The remaining 11 novel unigenes that did not match any known genes in the database may provide a basis for the discovery of new transcript associated with infection. This study provided a gene expression pattern for normal duck liver and for the previously unrecognized changes in gene transcription that are altered during DHAV-C infection. Our data revealed useful information for future studies onthe duck genome and provided new insights into the molecular mechanism of host-DHAV-C interaction.