Project description:We aim to study the unusual TMA metabolism mechanism of ducks, and further explore the hidden reasons that led to the weakening TMA metabolism ability. To achieve this, transcriptome, proteome, and metagenome analyses were integrated based on the constructed duck populations with high TMA metabolism ability and low TMA metabolism ability. In addition, further experiments were followed to validate the hypothesis on the limited flavin-containing monooxygenase 3 (FMO3) metabolism ability of ducks. The study demonstrated that both cecal microbe, including Akkermansia and Mucispirillum, and liver FMO3 participated in the TMA metabolism process of ducks. The limited oxidation ability of FMO3 explained the weakening TMA metabolism ability of ducks. Nevertheless, it contributed to the duck’s survival and reproduction during the evolutional adaption process.
Project description:The complexity of transcriptome in human liver has not been clarified quite clearly so far. Here we collect various types of liver samples, including primary tumor, relapse tumor, benign adjacent, normal liver and tumor cell lines.High-throughput RNA sequecing data was generated for each sample.We assembled transcripts from these data under the guidance of GENCODE transcript annotation (v22).After the assembly, 94,272 genes and 371,388 transcripts were identified. Furthermore, we identified alternative splicing events from these genes and transcripts.
Project description:Applied de novo assembly, both protein coding and non-coding RNAs were profiled in AFB1 induced HCC and AFB1 resistant liver sample. Compared with normal liver, the perturbation on transcriptome was revealed in multiple aspects, implying the potential mechanism of toxic resistance.
