ArticleGenome research2003
Generation, annotation, evolutionary analysis, and database integration of 20,000 unique sea urchin EST clusters.
Article in Genome research, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- A pancreatic exocrine-like cell regulatory circuit operating in the upper stomach of the sea urchin Strongylocentrotus purpuratus larva.BMC evolutionary biology · 2016Article
- Do echinoderm genomes measure up?Marine genomics · 2015Review
- Myogenesis in the sea urchin embryo: the molecular fingerprint of the myoblast precursors.EvoDevo · 2013Article
- Sequencing and analysis of the gastrula transcriptome of the brittle star Ophiocoma wendtii.EvoDevo · 2012Article
- In silico characterization of the neural alpha tubulin gene promoter of the sea urchin embryo Paracentrotus lividus by phylogenetic footprinting.Molecular biology reports · 2012Article
- The calculation of information and organismal complexity.Biology direct · 2010Article
- Assembly of 500,000 inter-specific catfish expressed sequence tags and large scale gene-associated marker development for whole genome association studies.Genome biology · 2010Article
- Chordin is required for neural but not axial development in sea urchin embryos.Developmental biology · 2009Article
- MytiBase: a knowledgebase of mussel (M. galloprovincialis) transcribed sequences.BMC genomics · 2009Article
- SpBase: the sea urchin genome database and web site.Nucleic acids research · 2009Article
- Ca(2+) signaling occurs via second messenger release from intraorganelle synthesis sites.Current biology : CB · 2008Article
- Distinct profiles of expressed sequence tags during intestinal regeneration in the sea cucumber Holothuria glaberrima.Physiological genomics · 2007Article
- A global view of gene expression in lithium and zinc treated sea urchin embryos: new components of gene regulatory networks.Genome biology · 2007Article
- A genomic view of the sea urchin nervous system.Developmental biology · 2006Article
- Analysis of cytoskeletal and motility proteins in the sea urchin genome assembly.Developmental biology · 2006Article
- Molecular diversity and evolution of the Siglec family of cell-surface lectins.Molecular diversity · 2006Review
- Development of a citrus genome-wide EST collection and cDNA microarray as resources for genomic studies.Plant molecular biology · 2005Article
- GOblet: a platform for Gene Ontology annotation of anonymous sequence data.Nucleic acids research · 2004Article
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Together with the hemichordates, sea urchins represent basal groups of nonchordate invertebrate deuterostomes that occupy a key position in bilaterian evolution. Because sea urchin embryos are also amenable to functional studies, the sea urchin system has emerged as one of the leading models for the analysis of the function of genomic regulatory networks that control development. We have analyzed a total of 107,283 cDNA clones of libraries that span the development of the sea urchin Strongylocentrotus purpuratus. Normalization by oligonucleotide fingerprinting, EST sequencing and sequence clustering resulted in an EST catalog comprised of 20,000 unique genes or gene fragments. Around 7000 of the unique EST consensus sequences were associated with molecular and developmental functions. Phylogenetic comparison of the identified genes to the genome of the urochordate Ciona intestinalis indicate that at least one quarter of the genes thought to be chordate specific were already present at the base of deuterostome evolution. Comparison of the number of gene copies in sea urchins to those in chordates and vertebrates indicates that the sea urchin genome has not undergone extensive gene or complete genome duplications. The established unique gene set represents an essential tool for the annotation and assembly of the forthcoming sea urchin genome sequence. All cDNA clones and filters of all analyzed libraries are available from the resource center of the German genome project at http://www.rzpd.de.
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