Rapid transcriptome and proteome profiling of a non-model marine invertebrate, Bugula neritina
Voolstra, Christian R.
Bajic, Vladimir B.
KAUST DepartmentKAUST Global Collaborative Research Program
Biosciences Core Lab
Biological and Environmental Sciences and Engineering (BESE) Division
Marine Science Program
Red Sea Research Center (RSRC)
Computational Bioscience Research Center (CBRC)
Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
Applied Mathematics and Computational Science Program
Reef Genomics Lab
Integrative Systems Biology Lab
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AbstractNon-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.
SponsorsThe 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.
CollectionsArticles; Bioscience Core Lab; Biological and Environmental Sciences and Engineering (BESE) Division; Marine Science Program; Red Sea Research Center (RSRC); Bioscience Program; Computational Bioscience Research Center (CBRC); Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division; Applied Mathematics and Computational Science Program; Reef Genomics, part of the Global Ocean Genome Project
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