Genomics / Proteomics
Jianhua, Ouyang , Renchao, Zhou , Suhua, Shi .
De novo assembly and analysis of transcriptome of a mangrove associate Hibiscus tiliaceus L. sequenced by Illumina technology.
Hibiscus tiliaceus, a mangrove associate, has two different ecotypes inhabiting in intertidal and inland environments, respectively. It may represent a good example of differential adaptation to heterogeneous habitats. The advent of next-generation sequencing technology such as 454 and Illunmina make it possible to analyze the genome or transcriptome in shorter time with less cost and time. We used Illumina sequencing technology to obtain transcriptome data for genomic and evolutionary researches in future. In this study, more than 30 million 75-nt paired-end reads were assembled into 43,899 contigs with an average length of 710 nt by using a short-read assembler ABySS, and all the contigs have the average depth 54.8 x. Of the 43,899 contigs, 32,313 were successfully annotated using Gene Ontology (GO) terms and 5,897 were successfully annotated using the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. This study will help us to find new genes in Hibiscus, which has many important garden plants but little transcirptome information. Most importantly, we can conduct evolutionary analysis with other closely related species to learn more about adaptive evolution and codon usage bias of this mangrove species.
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1 - Sun Yat-sen University, College of Life Science, xingangxilu 135, Guangzhou,Guangdong, Guangzhou, GD, 510275, China
Presentation Type: Poster:Posters for Topics
Location: Khorassan Ballroom/Chase Park Plaza
Date: Monday, July 11th, 2011
Time: 5:30 PM