characteristics.text: SAMN00114916
characteristics.characteristic: External Id
characteristics.text: IMAR-Center. University of the Azores
characteristics.characteristic: INSDC center name
characteristics.text: 2010-10-04T11:48:43.320Z
characteristics.characteristic: INSDC first public
characteristics.text: 2013-06-12T08:59:57.447Z
characteristics.characteristic: INSDC last update
characteristics.text: SRS116449
characteristics.characteristic: INSDC secondary accession
characteristics.text: live
characteristics.characteristic: INSDC status
characteristics.text: Generic
characteristics.characteristic: NCBI submission model
characteristics.text: Generic.1.0
characteristics.characteristic: NCBI submission package
characteristics.text: SRS116449
characteristics.characteristic: SRA accession
characteristics.text: Gill tissues from 6 different animals were dissected from -80ºC preserved animals and processed for total RNA extraction using the RiboPure™ kit (Ambion®, Austin, TX). The quality of total RNA was verified on a 1.4% (w/v) agarose-MOPS-formaldehyde denaturating gels and by assessing the A260/280 and A260/230 ratios using the NanoVue spectrophotometer (GE Healthcare, Piscataway, NJ). Poly-A RNA was extracted from each total RNA sample using the Poly(A)Purist™ mRNA Purification Kit according to manufacturer’s instructions (Ambion Inc, Applied Biosystems). The mRNA from each gill tissue sample from all 6 animals (approximately 20-50 µg/ml) was pooled and used as the source of starting material for cDNA synthesis and the production of normalized cDNA intended for 454 sequencing. The normalization process was performed by Evrogen (Moscow, Russia) and based on the SMART double-stranded cDNA synthesis methodology using a modified template-switching approach that allows the introduction of known adapter sequences to the both ends of the first-strand cDNA. cDNA was further amplified by PCR and normalized using Duplex-Specific Nuclease-technology. Four micrograms of normalized cDNA were sequenced in a full plate of 454 GS FLX Titanium according to the standard manufacturer’s instructions (Roche-454 Life Sciences) at Biocant (Cantanhede, Portugal, www.biocant.pt). Following 454 sequencing, the quality trimming and size selection of reads were determined by the 454 software after which the SMART adaptor sequences were removed from reads using a custom script and the poly-A masked using MIRA, to assure correct assembly of raw sequencing reads. A total of 778,996 quality reads were subjected to the MIRA assembler (version 3.0.5), with default parameters.
characteristics.characteristic: description
characteristics.text: Bathymodiolus azoricus
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_150808
characteristics.characteristic: organism
characteristics.text: Bathymodiolus azoricus (gill tissues) transcriptome
characteristics.characteristic: title