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De novo transcriptome analysis of Inonotus baumii by RNA-seq

Paper ID Volume ID Publish Year Pages File Format Full-Text
20126 43159 2016 5 PDF Available
Title
De novo transcriptome analysis of Inonotus baumii by RNA-seq
Abstract

•First publication of the Inonotus baumii transcriptome by Illumina sequencing.•30,051 assembled unigenes were obtained including 20,634 unigenes with annotation.•12 candidate genes involved in the triterpenoid biosynthesis pathway were found.•197 putative wood-degrading genes in the I. baumii transcriptome were obtained.•Providing insights into the genetic background of I. baumii.

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.

Keywords
Inonotus baumii; Transcriptome; Triterpenoid biosynthesis; Lignin degradation; Carbohydrate-active enzymes; Next-generation sequencing
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De novo transcriptome analysis of Inonotus baumii by RNA-seq
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Publisher
Database: Elsevier - ScienceDirect
Journal: Journal of Bioscience and Bioengineering - Volume 121, Issue 4, April 2016, Pages 380–384
Authors
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Subjects
Physical Sciences and Engineering Chemical Engineering Bioengineering
Get Full-Text Now
Don't Miss Today's Special Offer
Price was $35.95
You save - $31
Price after discount Only $4.95
100% Money Back Guarantee
Full-text PDF Download
Online Support
Any Questions? feel free to contact us