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    Rapid transcriptome and proteome profiling of a non-model marine invertebrate, Bugula neritina

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    Type
    Article
    Authors
    Wang, Hao
    Zhang, Huoming cc
    Wong, Yuehim
    Voolstra, Christian R. cc
    Ravasi, Timothy cc
    Bajic, Vladimir B. cc
    Qian, Pei-Yuan cc
    KAUST Department
    Applied Mathematics and Computational Science Program
    Biological and Environmental Sciences and Engineering (BESE) Division
    Bioscience Core Lab
    Bioscience Program
    Computational Bioscience Research Center (CBRC)
    Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
    Integrative Systems Biology Lab
    KAUST Global Collaborative Research Program
    Marine Science Program
    OCRF- Special Academic Partnership
    Red Sea Research Center (RSRC)
    Reef Genomics Lab
    KAUST Grant Number
    SA-00040/UKC0016
    Date
    2010-06-10
    Online Publication Date
    2010-06-10
    Print Publication Date
    2010-08
    Permanent link to this record
    http://hdl.handle.net/10754/561511
    
    Metadata
    Show full item record
    Abstract
    Non-model organisms represent the majority of life forms in our planet. However, the lack of genetic information hinders us to understand the unique biological phenomena in non-model organisms at the molecular level. In this study, we applied a tandem transcriptome and proteome profiling on a non-model marine fouling organism, Bugula neritina. Using a 454 pyrosequencing platform with the updated titanium reagents, we generated a total of 48M bp transcriptome data consisting of 131 450 high-quality reads. Of these, 122 650 reads (93%) were assembled to produce 6392 contigs with an average length of 538 bases and the remaining 8800 reads were singletons. Of the total 15 192 unigenes, 13 863 ORFs were predicated, of which 6917 were functionally annotated based on gene ontology and eukaryotic orthologous groups. Subsequent proteome analysis identified and quantified 882 proteins from B. neritina. These results would provide fundamental and important information for the subsequent studies of molecular mechanism in larval biology, development, antifouling research. Furthermore, we demonstrated, for the first time, the combined use of two high-throughput technologies as a powerful approach for accelerating the studies of non-model but otherwise important species. © 2010 Wiley-VCH Verlag GmbH & Co. KGaA.
    Citation
    Wang, H., Zhang, H., Wong, Y. H., Voolstra, C., Ravasi, T., B. Bajic, V., & Qian, P.-Y. (2010). Rapid transcriptome and proteome profiling of a non-model marine invertebrate, Bugula neritina. PROTEOMICS, 10(16), 2972–2981. doi:10.1002/pmic.201000056
    Sponsors
    The pyrosequencing raw data were submitted to the SRA of NCBI with the accession number SRA010777.2. The authors thank Dr. On On Lee and Dr. Shawn Arallno for comments and suggestions of this manuscript. This work was supported by an Award No. SA-00040/UKC0016 of the King Abdullah University of Science & Technology (KAUST), the RGC grants of HKSAR (662408, N HKUST602/09, AoE/P-04/04-02-II) to P.-Y Qian.
    Publisher
    Wiley
    Journal
    PROTEOMICS
    DOI
    10.1002/pmic.201000056
    PubMed ID
    20540116
    ae974a485f413a2113503eed53cd6c53
    10.1002/pmic.201000056
    Scopus Count
    Collections
    Articles; Biological and Environmental Science and Engineering (BESE) Division; Red Sea Research Center (RSRC); Bioscience Program; Marine Science Program; Applied Mathematics and Computational Science Program; Computational Bioscience Research Center (CBRC); Bioscience Core Lab; Computer, Electrical and Mathematical Science and Engineering (CEMSE) Division; Reef Genomics, part of the Global Ocean Genome Project

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