Only sequences above 100 bp were retained for assembly (Table 1). The resulting reads were then screened against all available Artemia species in NCBI (38,287 learn more sequences at 04.2012) to remove food source contamination and also Hippoglossus hippoglossus mitochondrial DNA (27 sequences at 04.2012) using BLASTn (settings: score > 100; e-value < 1e − 25) and contaminating
sequences removed. The remaining reads were used in the Newbler (www.454.com) assembly, using default parameters. 36% of the reads were assembled into the contigs, with, as expected, read density increasing with contig length ( Fig. 1), the remaining were either repeats, singletons, outliers or too short after being trimmed in Newbler. 22,272 contigs of 500 base pairs or greater, with
a median length of 937 were assembled ( Fig. 2), with an annotation rate of 85% against the NCBI nr database at an e-value threshold of 1e − 10 using BLAST sequence similarity searching. The present molecular resources were generated for a critical production stage that underpins the sustainability of the aquaculture industry. The resource should be of interest for Atlantic halibut producers and for fish stock management of the endangered wild Romidepsin mw fish. From a research perspective the molecular dataset can be used to understand the molecular changes accompanying flatfish metamorphosis. The sequences for Atlantic halibut obtained in this study are available at the NCBI Short Read Archive (Accession number: SRP044664) and the
consensus sequences of the contigs are available at http://ramadda.nerc-bas.ac.uk/repository in the folder: NERC-BAS datasets/Genomics/Transcriptomes/Hippoglossus_hippoglossus. This research study was funded by the European Community FP7 (LIFECYCLE — No. 222719). Ricardo N. Alves was funded by FCT (SFRH/BD/69209/2010). MSC and MAST were funded by NERC core funding to the British Antarctic Survey. “
“The red cusk-eel (Genypterus chilensis, Guichenot, 1848) of the Ophidiidae family is an eel-like teleost fish distributed along the coasts of the Eastern South Pacific Ocean ( Nielsen, 4-Aminobutyrate aminotransferase 1999). In Chile, this fish mainly inhabits the rocky bottoms of the epipelagic–mesopelagic zone (20 and 200 m) along the coasts of Arica (18°S) to the Chonos Archipelago (47°S) ( Kong et al., 1988). For decades this species has been highly valued and consumed, with local fishermen primarily exploiting this resource. Recently, the red cusk-eel was selected as one of the endemic species with the greatest farming potential in Chile due to its exceptional flesh quality and high commercial value ( Vega et al., 2012). At present, the available biological information on G. chilensis is very scarce and includes data regarding parasitism ( Chong and Gonzalez, 2009), the reproductive cycle ( Moravec et al., 2011), nuclear DNA content ( Jara-Seguel et al., 2011) and only one 16S ribosomal RNA partial sequence (GenBank, JN387140.1).