Deep RNA sequencing improved the structural annotation of the Tuber melanosporum transcriptome

作者：Tisserant E; Da Silva C; Kohler A; Morin E; Wincker P; Martin F^*

来源：New Phytologist, 2011, 189(3): 883-891.

DOI：10.1111/j.1469-8137.2010.03597.x

• ectomycorrhiza
• fruiting body
• high-throughput Illumina RNA-sequencing (RNA-Seq)
• transcriptome
• Tuber

P>The functional complexity of the Tuber melanosporum transcriptome has not yet been fully elucidated. Here, we applied high-throughput Illumina RNA-sequencing (RNA-Seq) to the transcriptome of T. melanosporum at different major developmental stages, that is free-living mycelium, fruiting body and ectomycorrhiza.
Sequencing of cDNA libraries generated a total of c. 24 million sequence reads representing > 882 Mb of sequence data. To construct a coverage signal profile across the genome, all reads were then aligned to the reference genome assembly of T. melanosporum Mel28.
We were able to identify a substantial number of novel transcripts, antisense transcripts, new exons, untranslated regions (UTRs), alternative upstream initiation codons and upstream open reading frames.
This RNA-Seq analysis allowed us to improve the genome annotation. It also provided us with a genome-wide view of the transcriptional and post-transcriptional mechanisms generating an increased number of transcript isoforms during major developmental transitions in T. melanosporum.

• 出版日期2011
• 单位中国地震局