Transcriptome analysis in Concholepas concholepas (Gastropoda, Muricidae): Mining and characterization of new genomic and molecular markers - Archive ouverte HAL Access content directly
Journal Articles Marine Genomics Year : 2011

Transcriptome analysis in Concholepas concholepas (Gastropoda, Muricidae): Mining and characterization of new genomic and molecular markers

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Leyla Cardenas
  • Function : Author
Roland Sanchez
  • Function : Author
Daniela Gomez
  • Function : Author
Gonzalo Fuenzalida
  • Function : Author
Cristian Gallardo-Escarate
  • Function : Author

Abstract

The marine gastropod Concholepas concholepas, locally known as the ``loco'', is the main target species of the benthonic Chilean fisheries. Genetic and genomic tools are necessary to study the genome of this species in order to understand the molecular basis of its development, growth, and other key traits to improve the management strategies and to identify local adaptation to prevent loss of biodiversity. Here, we use pyrosequencing technologies to generate the first transcriptomic database from adult specimens of the loco. After trimming, a total of 140,756 Expressed Sequence Tag sequences were achieved. Clustering and assembly analysis identified 19,219 contigs and 105,435 singleton sequences. BlastN analysis showed a significant identity with Expressed Sequence Tags of different gastropod species available in public databases. Similarly, BlastX results showed that only 895 out of the total 124,654 had significant hits and may represent novel genes for marine gastropods. From this database, simple sequence repeat motifs were also identified and a total of 38 primer pairs were designed and tested to assess their potential as informative markers and to investigate their cross-species amplification in different related gastropod species. This dataset represents the first publicly available 454 data for a marine gastropod endemic to the southeastern Pacific coast, providing a valuable transcriptomic resource for future efforts of gene discovery and development of functional markers in other marine gastropods. (C) 2011 Elsevier B.V. All rights reserved.
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hal-01250927 , version 1 (05-01-2016)

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Leyla Cardenas, Roland Sanchez, Daniela Gomez, Gonzalo Fuenzalida, Cristian Gallardo-Escarate, et al.. Transcriptome analysis in Concholepas concholepas (Gastropoda, Muricidae): Mining and characterization of new genomic and molecular markers. Marine Genomics, 2011, 4 (3), pp.197-205. ⟨10.1016/j.margen.2011.05.002⟩. ⟨hal-01250927⟩
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