The transcriptome of metamorphosing flatfish

Background Flatfish metamorphosis denotes the extraordinary transformation of a symmetric pelagic larva into an asymmetric benthic juvenile. Metamorphosis in vertebrates is driven by thyroid hormones (THs), but how they orchestrate the cellular, morphological and functional modifications associated with maturation to juvenile/adult states in flatfish is an enigma. Since THs act via thyroid receptors that are ligand activated transcription factors, we hypothesized that the maturation of tissues during metamorphosis should be preceded by significant modifications in the transcriptome. Targeting the unique metamorphosis of flatfish and taking advantage of the large size of Atlantic halibut (Hippoglossus hippoglossus) larvae, we determined the molecular basis of TH action using RNA sequencing. Results De novo assembly of sequences for larval head, skin and gastrointestinal tract (GI-tract) yielded 90,676, 65,530 and 38,426 contigs, respectively. More than 57 % of the assembled sequences were successfully annotated using a multi-step Blast approach. A unique set of biological processes and candidate genes were identified specifically associated with changes in morphology and function of the head, skin and GI-tract. Transcriptome dynamics during metamorphosis were mapped with SOLiD sequencing of whole larvae and revealed greater than 8,000 differentially expressed (DE) genes significantly (p < 0.05) up- or down-regulated in comparison with the juvenile stage. Candidate transcripts quantified by SOLiD and qPCR analysis were significantly (r = 0.843; p < 0.05) correlated. The majority (98 %) of DE genes during metamorphosis were not TH-responsive. TH-responsive transcripts clustered into 6 groups based on their expression pattern during metamorphosis and the majority of the 145 DE TH-responsive genes were down-regulated. Conclusions A transcriptome resource has been generated for metamorphosing Atlantic halibut and over 8,000 DE transcripts per stage were identified. Unique sets of biological processes and candidate genes were associated with changes in the head, skin and GI-tract during metamorphosis. A small proportion of DE transcripts were TH-responsive, suggesting that they trigger gene networks, signalling cascades and transcription factors, leading to the overt changes in tissue occurring during metamorphosis.

Can small MPAs protect local populations of a coastal flatfish, Solea senegalensis?

The benefits of protection of a small (4.3 km(2)) marine protected area (MPA) for Senegalese sole, Solea senegalensis, were investigated through experimental fishing trials and long-term (up to 293days) passive acoustic telemetry. A total of 106 trammel net sets were carried out between 2007 and 2011. Significant differences in abundance and biomass of sole between bottom types/depths (sandy bottoms between 12 and 20m deep vs muddy bottoms between 35 and 45m deep) were found, but no significant differences were attributable to the implementation of the no-take area. Passive acoustic telemetry revealed that most Senegalese sole spent a large part of their time between first and last detections (average residency index=69%) inside a relatively small area (average 95%=1.2km(2)), during which they preferred sandy bottoms, the most common habitat inside the MPA. Results also demonstrated that Senegalese sole do regular excursions beyond reserve boundaries, eventually emigrating from the MPA. The results suggest that small coastal MPAs providing adequate habitat may protect individuals of this species while allowing for moderate levels of adult spillover to neighbouring areas.

Análise da distribuição do esforço de pesca e das capturas da palmeta (Reinhardtius hippoglossoides, Walbaum 1792) capturada pela frota comercial portuguesa na área de regulamentação NAFO

Dissertação de Mestrado, Aquacultura e Pescas, Especialização em Pescas, Faculdade de Ciências do Mar e do Ambiente, Universidade do Algarve, 2008

Diets of the sole Solea vulgaris Quensel, 1806 and Solea senegalensis Kaup, 1858 in the lower estuary of the Guadiana River (Algarve, southern Portugal): Preliminary results

The feeding habits of two major species of sole, the common sole Solea vulgaris Quensel, 1806 and the Senegalese sole Solea senegalensis Kaup, 1858 were studied in the lower estuary of the Guadiana River (Algarve, southern Portugal). An evaluation of the number, weight, and feeding coefficient of prey types showed that S. vulgaris feed on a limited variety of prey (only Polychaeta and Tanaidacea) and present low-intensity feeding activity, with small differences in diet between seasons. S. senegalensis also have a low-diversity diet (with only one more taxa, Amphipoda), but exhibit more intense feeding activity which varies seasonally, although with little seasonal variation in the relative importance of the main preys. The diet composition of these two species suggests feeding specialization.