Increasing genomic information in bivalves through new EST collections in four species: Development of new genetic markers for environmental studies and genome evolution
The generation of EST information is an essential step in the genomic characterisation of species. In the context of the European Network Marine Genomics, a common goal was to significantly increase the amount of ESTs in commercial marine mollusk species and more specifically in the less studied but...
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Online Access: | http://hdl.handle.net/10261/72012 https://doi.org/10.1016/j.gene.2007.10.021 |
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ftcsic:oai:digital.csic.es:10261/72012 2024-02-11T10:03:13+01:00 Increasing genomic information in bivalves through new EST collections in four species: Development of new genetic markers for environmental studies and genome evolution Saavedra, Carlos Felipe Piña, Benjamín Jarque, Sergio 2008 http://hdl.handle.net/10261/72012 https://doi.org/10.1016/j.gene.2007.10.021 en eng Elsevier doi:10.1016/j.gene.2007.10.021 issn: 0378-1119 Gene 408(1-2): 27-36 (2008) http://hdl.handle.net/10261/72012 none artículo http://purl.org/coar/resource_type/c_6501 2008 ftcsic https://doi.org/10.1016/j.gene.2007.10.021 2024-01-16T09:47:31Z The generation of EST information is an essential step in the genomic characterisation of species. In the context of the European Network Marine Genomics, a common goal was to significantly increase the amount of ESTs in commercial marine mollusk species and more specifically in the less studied but ecologically and commercially important groups, such as mussel and clam genera. Normalized cDNA libraries were constructed for four different relevant bivalves species (Crassostrea gigas, Mytilus edulis, Ruditapes decussatus and Bathymodiolus azoricus), using numerous tissues and physiological conditions. In this paper, we present the analysis of the 13,013 expressed sequence tags (ESTs) generated. Each EST library was independently assembled and 1300-3000 unique sequences were identified in each species. For the different species, functional categories could be assigned to only about 16 to 27% of ESTs using the GO annotation tool. All sequences have been incorporated into a publicly available database and form the basis for subsequent microarray design, SNP detection and polymorphism analysis, and the placement of novel markers on genetic linkage maps. © 2007 Elsevier B.V. All rights reserved. The research presented in this paper was funded by the European Commission through the Marine Genomics Network of Excellence (GOCE-CT-2004-505403). C.S. wishes to acknowledge additional funding from the “Ramón y Cajal” Program and grants AGL2003–04143 and AGL2006–08944 from the Spanish government. Peer Reviewed Article in Journal/Newspaper Crassostrea gigas Digital.CSIC (Spanish National Research Council) Gene 408 1-2 27 36 |
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Open Polar |
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Digital.CSIC (Spanish National Research Council) |
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ftcsic |
language |
English |
description |
The generation of EST information is an essential step in the genomic characterisation of species. In the context of the European Network Marine Genomics, a common goal was to significantly increase the amount of ESTs in commercial marine mollusk species and more specifically in the less studied but ecologically and commercially important groups, such as mussel and clam genera. Normalized cDNA libraries were constructed for four different relevant bivalves species (Crassostrea gigas, Mytilus edulis, Ruditapes decussatus and Bathymodiolus azoricus), using numerous tissues and physiological conditions. In this paper, we present the analysis of the 13,013 expressed sequence tags (ESTs) generated. Each EST library was independently assembled and 1300-3000 unique sequences were identified in each species. For the different species, functional categories could be assigned to only about 16 to 27% of ESTs using the GO annotation tool. All sequences have been incorporated into a publicly available database and form the basis for subsequent microarray design, SNP detection and polymorphism analysis, and the placement of novel markers on genetic linkage maps. © 2007 Elsevier B.V. All rights reserved. The research presented in this paper was funded by the European Commission through the Marine Genomics Network of Excellence (GOCE-CT-2004-505403). C.S. wishes to acknowledge additional funding from the “Ramón y Cajal” Program and grants AGL2003–04143 and AGL2006–08944 from the Spanish government. Peer Reviewed |
format |
Article in Journal/Newspaper |
author |
Saavedra, Carlos Felipe Piña, Benjamín Jarque, Sergio |
spellingShingle |
Saavedra, Carlos Felipe Piña, Benjamín Jarque, Sergio Increasing genomic information in bivalves through new EST collections in four species: Development of new genetic markers for environmental studies and genome evolution |
author_facet |
Saavedra, Carlos Felipe Piña, Benjamín Jarque, Sergio |
author_sort |
Saavedra, Carlos Felipe |
title |
Increasing genomic information in bivalves through new EST collections in four species: Development of new genetic markers for environmental studies and genome evolution |
title_short |
Increasing genomic information in bivalves through new EST collections in four species: Development of new genetic markers for environmental studies and genome evolution |
title_full |
Increasing genomic information in bivalves through new EST collections in four species: Development of new genetic markers for environmental studies and genome evolution |
title_fullStr |
Increasing genomic information in bivalves through new EST collections in four species: Development of new genetic markers for environmental studies and genome evolution |
title_full_unstemmed |
Increasing genomic information in bivalves through new EST collections in four species: Development of new genetic markers for environmental studies and genome evolution |
title_sort |
increasing genomic information in bivalves through new est collections in four species: development of new genetic markers for environmental studies and genome evolution |
publisher |
Elsevier |
publishDate |
2008 |
url |
http://hdl.handle.net/10261/72012 https://doi.org/10.1016/j.gene.2007.10.021 |
genre |
Crassostrea gigas |
genre_facet |
Crassostrea gigas |
op_relation |
doi:10.1016/j.gene.2007.10.021 issn: 0378-1119 Gene 408(1-2): 27-36 (2008) http://hdl.handle.net/10261/72012 |
op_rights |
none |
op_doi |
https://doi.org/10.1016/j.gene.2007.10.021 |
container_title |
Gene |
container_volume |
408 |
container_issue |
1-2 |
container_start_page |
27 |
op_container_end_page |
36 |
_version_ |
1790599405767753728 |