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PCR primers for an aldolase-B intron in acanthopterygian fishes

BACKGROUND: Nuclear DNA sequences provide genetic information that complements studies using mitochondrial DNA. Some 'universal' primer sets have been developed that target introns within protein-coding loci, but many simultaneously amplify introns from paralogous loci. Refining existing p...

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Autores principales: Quattro, Joseph M, Jones, William J, Oswald, Kenneth J
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2001
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC59998/
https://www.ncbi.nlm.nih.gov/pubmed/11722793
http://dx.doi.org/10.1186/1471-2148-1-9
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author Quattro, Joseph M
Jones, William J
Oswald, Kenneth J
author_facet Quattro, Joseph M
Jones, William J
Oswald, Kenneth J
author_sort Quattro, Joseph M
collection PubMed
description BACKGROUND: Nuclear DNA sequences provide genetic information that complements studies using mitochondrial DNA. Some 'universal' primer sets have been developed that target introns within protein-coding loci, but many simultaneously amplify introns from paralogous loci. Refining existing primer sets to target a single locus could circumvent this problem. RESULTS: Aldolase intron 'G' was amplified from four fish species using previously described primer sets that target several loci indiscriminately. Phylogenetic analyses were used to group these fragments and other full-length aldolase proteins from teleost fishes into orthologous clades and a primer set was designed to target specifically an intron within the aldolase-B locus in acanthopterygian fishes. DNA amplifications were tried in a variety of acanthopterygian fishes and amplification products, identifiable as aldolase-B intron 'G', were observed in all atherinomorph and percomorph taxa examined. Sequence variation within this locus was found within and among several species examined. CONCLUSIONS: Using 'universal' primer sets coupled with phylogenetic analyses it was possible to develop a genetic assay to target a specific locus in a variety of fish taxa. Sequence variation was observed within and among species suggesting that this targeted assay might facilitate interspecific and intraspecific comparisons.
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spelling pubmed-599982001-11-27 PCR primers for an aldolase-B intron in acanthopterygian fishes Quattro, Joseph M Jones, William J Oswald, Kenneth J BMC Evol Biol Methodology Article BACKGROUND: Nuclear DNA sequences provide genetic information that complements studies using mitochondrial DNA. Some 'universal' primer sets have been developed that target introns within protein-coding loci, but many simultaneously amplify introns from paralogous loci. Refining existing primer sets to target a single locus could circumvent this problem. RESULTS: Aldolase intron 'G' was amplified from four fish species using previously described primer sets that target several loci indiscriminately. Phylogenetic analyses were used to group these fragments and other full-length aldolase proteins from teleost fishes into orthologous clades and a primer set was designed to target specifically an intron within the aldolase-B locus in acanthopterygian fishes. DNA amplifications were tried in a variety of acanthopterygian fishes and amplification products, identifiable as aldolase-B intron 'G', were observed in all atherinomorph and percomorph taxa examined. Sequence variation within this locus was found within and among several species examined. CONCLUSIONS: Using 'universal' primer sets coupled with phylogenetic analyses it was possible to develop a genetic assay to target a specific locus in a variety of fish taxa. Sequence variation was observed within and among species suggesting that this targeted assay might facilitate interspecific and intraspecific comparisons. BioMed Central 2001-11-05 /pmc/articles/PMC59998/ /pubmed/11722793 http://dx.doi.org/10.1186/1471-2148-1-9 Text en Copyright © 2001 Quattro et al; licensee BioMed Central Ltd. This is an Open Access article: verbatim copying and redistribution of this article are permitted in all media for any purpose, provided this notice is preserved along with the article's original URL.
spellingShingle Methodology Article
Quattro, Joseph M
Jones, William J
Oswald, Kenneth J
PCR primers for an aldolase-B intron in acanthopterygian fishes
title PCR primers for an aldolase-B intron in acanthopterygian fishes
title_full PCR primers for an aldolase-B intron in acanthopterygian fishes
title_fullStr PCR primers for an aldolase-B intron in acanthopterygian fishes
title_full_unstemmed PCR primers for an aldolase-B intron in acanthopterygian fishes
title_short PCR primers for an aldolase-B intron in acanthopterygian fishes
title_sort pcr primers for an aldolase-b intron in acanthopterygian fishes
topic Methodology Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC59998/
https://www.ncbi.nlm.nih.gov/pubmed/11722793
http://dx.doi.org/10.1186/1471-2148-1-9
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