Transcriptome sequencing and microarray development for the Manila clam, Ruditapes philippinarum: genomic tools for environmental monitoring
Open Access
- 12 May 2011
- journal article
- research article
- Published by Springer Science and Business Media LLC in BMC Genomics
- Vol. 12 (1), 234
- https://doi.org/10.1186/1471-2164-12-234
Abstract
The Manila clam, Ruditapes philippinarum, is one of the major aquaculture species in the world and a potential sentinel organism for monitoring the status of marine ecosystems. However, genomic resources for R. philippinarum are still extremely limited. Global analysis of gene expression profiles is increasingly used to evaluate the biological effects of various environmental stressors on aquatic animals under either artificial conditions or in the wild. Here, we report on the development of a transcriptomic platform for global gene expression profiling in the Manila clam.This publication has 63 references indexed in Scilit:
- Ragulator-Rag Complex Targets mTORC1 to the Lysosomal Surface and Is Necessary for Its Activation by Amino AcidsCell, 2010
- RNA Dust: Where are the Genes?DNA Research, 2010
- High-throughput functional annotation and data mining with the Blast2GO suiteNucleic Acids Research, 2008
- Genome-wide transcription and the implications for genomic organizationNature Reviews Genetics, 2007
- Genome‐wide natural antisense transcription: coupling its regulation to its different regulatory mechanismsEMBO Reports, 2006
- Bivalve genomicsAquaculture, 2006
- Genome-wide in silico identification and analysis of cis natural antisense transcripts (cis-NATs) in ten speciesNucleic Acids Research, 2006
- Simple cDNA normalization using kamchatka crab duplex-specific nucleaseNucleic Acids Research, 2004
- Significance analysis of microarrays applied to the ionizing radiation responseProceedings of the National Academy of Sciences of the United States of America, 2001
- T-coffee: a novel method for fast and accurate multiple sequence alignmentJournal of Molecular Biology, 2000