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A quantitative PCR approach for determining the ribosomal DNA copy number in the genome of Agave tequila Weber Electron. J. Biotechnol.
Rubio-Piña,Jorge; Quiroz-Moreno,Adriana; Sánchez-Teyer,L. Felipe.
Background: Agave tequilana has a great economic importance in Mexico in order to produce alcoholic beverages and bioenergy. However, in this species the structure and organization of the rDNAs in the genome are limited, and it represents an obstacle both in their genetic research and improvement as well. rDNA copy number variations per eukaryotic genome have been considered as a source of genetic rearrangements. In this study, the copy number of 18S and 5S rDNAs in the A. tequilana genome was estimated, and an absolute quantitative qPCR assay and genome size was used. In addition, an association between the rDNAs copy number and physical mapping was performed to confirm our results. Results: The analysis were successfully applied to determine copy number...
Tipo: Journal article Palavras-chave: Agave tequilana; Copy number; Fluorescent in situ hybridization; Ribosomal DNA; Quantitative PCR.
Ano: 2016 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582016000400002
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Characterization and copy number of the S27 ribosomal protein gene from amphioxus Branchiostoma belcheri tsingtauense Genet. Mol. Biol.
Ma,Lifang; Zhang,Shicui; Liu,Zhenhui; Li,Hongyan; Xia,Jianjun.
A cDNA clone encoding ribosomal protein S27 (AmphiS27) was identified in the gut cDNA library of amphioxus Branchiostoma belcheri tsingtauense. This cDNA consists of 607 bp and contains a 255 bp open reading frame (ORF) corresponding to a deduced protein of 84 amino acids with a calculated molecular mass of 9,488 Da and an isoelectric point (pI) of 9.500. Alignment of the deduced AmphiS27 amino acid sequence with 12 known S27 protein sequences indicates that AmphiS27 shares 94-99% homology with its vertebrate homologue, 84-94% with invertebrate homologues and 69-72% with homologues from other eukaryotes, suggesting that AmphiS27 is more closely related to the vertebrate S27 protein than to its invertebrate counterpart. Southern blot analysis showed a...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Amphioxus; Branchiostoma; Ribosomal protein; S27; Copy number.
Ano: 2005 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572005000500029
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Discrepancy variation of dinucleotide microsatellite repeats in eukaryotic genomes Biol. Res.
GAO,HUAN; CAI,SHENGLI; YAN,BINLUN; CHEN,BAIYAO; YU,FEI.
To address whether there are differences of variation among repeat motif types and among taxonomic groups, we present here an analysis of variation and correlation of dinucleotide microsatellite repeats in eukaryotic genomes. Ten taxonomic groups were compared, those being primates, mammalia (excluding primates and rodentia), rodentia, birds, fish, amphibians and reptiles, insects, molluscs, plants and fungi, respectively. The data used in the analysis is from the literature published in the Journal of Molecular Ecology Notes. Analysis of variation reveals that there are no significant differences between AC and AG repeat motif types. Moreover, the number of alleles correlates positively with the copy number in both AG and AC repeats. Similar conclusions...
Tipo: Journal article Palavras-chave: Microsatellites; Eukaryotic genomes; Variation of SSR; Copy number; Meta-analysis.
Ano: 2009 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602009000300011
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