原创力文档de novo assembly, characterization and functional annotation of pineapple fruit transcriptome through massively parallel sequencing新创组装、特性和功能注释的菠萝水果通过大规模并行测序转录组.pdfVIP
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de novo assembly, characterization and functional annotation of pineapple fruit transcriptome through massively parallel sequencing新创组装、特性和功能注释的菠萝水果通过大规模并行测序转录组
De Novo Assembly, Characterization and Functional
Annotation of Pineapple Fruit Transcriptome through
Massively Parallel Sequencing
Wen Dee Ong, Lok-Yung Christopher Voo, Vijay Subbiah Kumar*
Biotechnology Research Institute, Universiti Malaysia Sabah, Kota Kinabalu, Sabah, Malaysia
Abstract
Background: Pineapple (Ananas comosus var. comosus), is an important tropical non-climacteric fruit with high commercial
potential. Understanding the mechanism and processes underlying fruit ripening would enable scientists to enhance the
improvement of quality traits such as, flavor, texture, appearance and fruit sweetness. Although, the pineapple is an
important fruit, there is insufficient transcriptomic or genomic information that is available in public databases. Application
of high throughput transcriptome sequencing to profile the pineapple fruit transcripts is therefore needed.
Methodology/Principal Findings: To facilitate this, we have performed transcriptome sequencing of ripe yellow pineapple
fruit flesh using Illumina technology. About 4.7 millions Illumina paired-end reads were generated and assembled using the
Velvet de novo assembler. The assembly produced 28,728 unique transcripts with a mean length of approximately 200 bp.
Sequence similarity search against non-redundant NCBI database identified a total of 16,932 unique transcripts (58.93%)
with significant hits. Out of these, 15,507 unique transcripts were assigned to gene ontology terms. Functional annotation
against Kyoto Encyclopedia of Genes and Genomes pathway database identified 13,598 unique transcripts (47.33%) which
were mapped to 126 pathways. The assembly revealed many transcripts that were previously unknown.
Conclusions: The unique transcripts derived from this work have rapidly increased of the number of the pineapple fruit
mRNA transcripts as it is now available in public databas
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