De novo transcriptome analysis of Inonotus baumii by RNA-seq.
Inonotus baumii, a basidiomycete white rot fungus, has been widely used as traditional herbal medicine in China, Korea, Japan and other Asian countries for many years. Its extract is of great medicinal importance and plays a valuable role in the immune response and disease resistance. However, limited genetic resources for I. baumii have hindered exploration of this species. In order to gain a molecular understanding of this fungus, Illumina high-throughput technology was used to sequence and analyze the transcriptome of I. baumii, and 280,691 contigs, 43,890 scaffolds and 30,051 unigenes were obtained. Additionally, based on similarity search with known proteins, unigenes were annotated with gene descriptions, gene ontology (GO), clusters of orthologous group (COG), and database of protein families (Pfam) terms. According to the annotation of unigenes, a total of 12 candidate genes involved in the triterpenoid biosynthesis pathway and 21 putative FOLymes (fungal oxidative lignin enzymes) and 176 CAZymes (carbohydrate-active enzymes) were obtained using homology-based BlastX. Moreover, for better understanding of the transcripts function, the BlastX algorithm was used to search for homologous sequences against the Yeast genome. This is the first study on transcriptome analyses of I. baumii, which provided a dataset for functional gene mining and laid a basis for further functional genomics studies of I. baumii.
College of Forestry, Northeast Forestry University, Hexing Road 26, Xiangfang District, Harbin 150040, Heilongjiang, China.
Li
L
Zou
College of Forestry, Northeast Forestry University, Hexing Road 26, Xiangfang District, Harbin 150040, Heilongjiang, China. Electronic address: stt_fighting@126.com.
Tingting
T
Sun
College of Forestry, Northeast Forestry University, Hexing Road 26, Xiangfang District, Harbin 150040, Heilongjiang, China.
Danlei
D
Li
College of Forestry, Northeast Forestry University, Hexing Road 26, Xiangfang District, Harbin 150040, Heilongjiang, China.
Yun
Y
Tan
College of Forestry, Northeast Forestry University, Hexing Road 26, Xiangfang District, Harbin 150040, Heilongjiang, China.
Guoquan
G
Zhang
College of Forestry, Northeast Forestry University, Hexing Road 26, Xiangfang District, Harbin 150040, Heilongjiang, China.
Feng
F
Wang
College of Forestry, Northeast Forestry University, Hexing Road 26, Xiangfang District, Harbin 150040, Heilongjiang, China.
Jian
J
Zhang
D000465:Algorithms; D001487:Basidiomycota / Q000235:genetics*; D020869:Gene Expression Profiling; D005798:Genes, Bacterial / Q000235:genetics; D008518:Medicine, East Asian Traditional; D058977:Molecular Sequence Annotation; D012313:RNA / Q000032:analysis* / Q000235:genetics*; D017423:Sequence Analysis, RNA; D059467:Transcriptome / Q000235:genetics*
D012313:RNA
Carbohydrate-active enzymes; Inonotus baumii; Lignin degradation; Next-generation sequencing; Transcriptome; Triterpenoid biosynthesis