Analysis and functional annotation of expressed sequence tags from in vitro cell lines of elasmobranchs: spiny dogfish shark (Squalus acanthias) and little skate (Leucoraja erinacea)
Elasmobranchs are the most commonly used experimental models among the jawed, cartilaginous fish (Chondrichthyes). Previously we developed cell lines from embryos of two elasmobranchs, Squalus acanthias the spiny dogfish shark (SAE line), and Leucoraja erinacea the little skate (LEE-1 line). From th...
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ftpubmed:oai:pubmedcentral.nih.gov:2917483 2023-05-15T18:51:07+02:00 Analysis and functional annotation of expressed sequence tags from in vitro cell lines of elasmobranchs: spiny dogfish shark (Squalus acanthias) and little skate (Leucoraja erinacea) Parton, Angela Bayne, Christopher J. Barnes, David W. 2010-04-24 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2917483 http://www.ncbi.nlm.nih.gov/pubmed/20471924 https://doi.org/10.1016/j.cbd.2010.04.004 en eng http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2917483 http://www.ncbi.nlm.nih.gov/pubmed/20471924 http://dx.doi.org/10.1016/j.cbd.2010.04.004 © 2010 Elsevier Inc. All rights reserved. Article Text 2010 ftpubmed https://doi.org/10.1016/j.cbd.2010.04.004 2013-09-03T03:29:13Z Elasmobranchs are the most commonly used experimental models among the jawed, cartilaginous fish (Chondrichthyes). Previously we developed cell lines from embryos of two elasmobranchs, Squalus acanthias the spiny dogfish shark (SAE line), and Leucoraja erinacea the little skate (LEE-1 line). From these lines cDNA libraries were derived and expressed sequence tags (ESTs) generated. From the SAE cell line 4303 unique transcripts were identified, with 1848 of these representing unknown sequences (showing no BLASTX identification). From the LEE-1 cell line, 3660 unique transcripts were identified, and unknown, unique sequences totaled 1333. Gene Ontology (GO) annotation showed that GO assignments for the two cell lines were in general similar. These results suggest that the procedures used to derive the cell lines led to isolation of cell types of the same general embryonic origin from both species. The LEE-1 transcripts included GO categories “envelope” and “oxidoreductase activity” but the SAE transcripts did not. GO analysis of SAE transcripts identified the category “anatomical structure formation” that was not present in LEE-1 cells. Increased organelle compartments may exist within LEE-1 cells compared to SAE cells, and the higher oxidoreductase activity in LEE-1 cells may indicate a role for these cells in responses associated with innate immunity or in steroidogenesis. These EST libraries from elasmobranch cell lines provide information for assembly of genomic sequences and are useful in revealing gene diversity, new genes and molecular markers, as well as in providing means for elucidation of full-length cDNAs and probes for gene array analyses. This is the first study of this type with members of the Chondrichthyes. Text spiny dogfish Squalus acanthias PubMed Central (PMC) Comparative Biochemistry and Physiology Part D: Genomics and Proteomics 5 3 199 206 |
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Article Parton, Angela Bayne, Christopher J. Barnes, David W. Analysis and functional annotation of expressed sequence tags from in vitro cell lines of elasmobranchs: spiny dogfish shark (Squalus acanthias) and little skate (Leucoraja erinacea) |
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Elasmobranchs are the most commonly used experimental models among the jawed, cartilaginous fish (Chondrichthyes). Previously we developed cell lines from embryos of two elasmobranchs, Squalus acanthias the spiny dogfish shark (SAE line), and Leucoraja erinacea the little skate (LEE-1 line). From these lines cDNA libraries were derived and expressed sequence tags (ESTs) generated. From the SAE cell line 4303 unique transcripts were identified, with 1848 of these representing unknown sequences (showing no BLASTX identification). From the LEE-1 cell line, 3660 unique transcripts were identified, and unknown, unique sequences totaled 1333. Gene Ontology (GO) annotation showed that GO assignments for the two cell lines were in general similar. These results suggest that the procedures used to derive the cell lines led to isolation of cell types of the same general embryonic origin from both species. The LEE-1 transcripts included GO categories “envelope” and “oxidoreductase activity” but the SAE transcripts did not. GO analysis of SAE transcripts identified the category “anatomical structure formation” that was not present in LEE-1 cells. Increased organelle compartments may exist within LEE-1 cells compared to SAE cells, and the higher oxidoreductase activity in LEE-1 cells may indicate a role for these cells in responses associated with innate immunity or in steroidogenesis. These EST libraries from elasmobranch cell lines provide information for assembly of genomic sequences and are useful in revealing gene diversity, new genes and molecular markers, as well as in providing means for elucidation of full-length cDNAs and probes for gene array analyses. This is the first study of this type with members of the Chondrichthyes. |
format |
Text |
author |
Parton, Angela Bayne, Christopher J. Barnes, David W. |
author_facet |
Parton, Angela Bayne, Christopher J. Barnes, David W. |
author_sort |
Parton, Angela |
title |
Analysis and functional annotation of expressed sequence tags from in vitro cell lines of elasmobranchs: spiny dogfish shark (Squalus acanthias) and little skate (Leucoraja erinacea) |
title_short |
Analysis and functional annotation of expressed sequence tags from in vitro cell lines of elasmobranchs: spiny dogfish shark (Squalus acanthias) and little skate (Leucoraja erinacea) |
title_full |
Analysis and functional annotation of expressed sequence tags from in vitro cell lines of elasmobranchs: spiny dogfish shark (Squalus acanthias) and little skate (Leucoraja erinacea) |
title_fullStr |
Analysis and functional annotation of expressed sequence tags from in vitro cell lines of elasmobranchs: spiny dogfish shark (Squalus acanthias) and little skate (Leucoraja erinacea) |
title_full_unstemmed |
Analysis and functional annotation of expressed sequence tags from in vitro cell lines of elasmobranchs: spiny dogfish shark (Squalus acanthias) and little skate (Leucoraja erinacea) |
title_sort |
analysis and functional annotation of expressed sequence tags from in vitro cell lines of elasmobranchs: spiny dogfish shark (squalus acanthias) and little skate (leucoraja erinacea) |
publishDate |
2010 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2917483 http://www.ncbi.nlm.nih.gov/pubmed/20471924 https://doi.org/10.1016/j.cbd.2010.04.004 |
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spiny dogfish Squalus acanthias |
genre_facet |
spiny dogfish Squalus acanthias |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2917483 http://www.ncbi.nlm.nih.gov/pubmed/20471924 http://dx.doi.org/10.1016/j.cbd.2010.04.004 |
op_rights |
© 2010 Elsevier Inc. All rights reserved. |
op_doi |
https://doi.org/10.1016/j.cbd.2010.04.004 |
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Comparative Biochemistry and Physiology Part D: Genomics and Proteomics |
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5 |
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3 |
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199 |
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206 |
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1766244906326556672 |