16s-23S rDNA: polymorphisms and their use for detection and identification of Xylella fastidiosa strains

Detalhes bibliográficos
Autor(a) principal: Martinati,Juliana Camargo
Data de Publicação: 2007
Outros Autores: Pacheco,Flávia Tereza Hansen, Miranda,Vitor Fernandes Oliveira de, Tsai,Siu Mui
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Brazilian Journal of Microbiology
Texto Completo: http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822007000100033
Resumo: Strains of Xylella fastidiosa from several hosts (coffee, citrus, grape, almond, oleander, peach, plum, etc.) were characterized by analyzing the content of the nucleotide sequences of 16S-23S rDNA (coding for a small subunit ribosomal RNA) spacer region (ITS). Current methods for sequencing the ITS region yields partial sequences that do not contribute with significant information. According to this fact, new primers have been designed in order to obtain a complete sequence and facilitate the sequencing. The complete 16S-23S sequences from 08 strains were amplified through PCR using the primers designed in our lab. The 16S-23S sequences obtained were compared with 52 others sequences entries in GenBank database. The results revealed a higher level of variation than that found in 16S gene sequences, with similarity values ranging from 0.79-1.00. The dendogram based on similarity data revealed 5 main groups. This spacer sequence contains two genes for tRNA (tRNAala and tRNAile). The sequence analysis of the tRNA content showed a conserved region with a few differences in the nucleotide composition.
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spelling 16s-23S rDNA: polymorphisms and their use for detection and identification of Xylella fastidiosa strainsGenetic diversity16S-23S rDNAintergenic spaceridentificationdetectionStrains of Xylella fastidiosa from several hosts (coffee, citrus, grape, almond, oleander, peach, plum, etc.) were characterized by analyzing the content of the nucleotide sequences of 16S-23S rDNA (coding for a small subunit ribosomal RNA) spacer region (ITS). Current methods for sequencing the ITS region yields partial sequences that do not contribute with significant information. According to this fact, new primers have been designed in order to obtain a complete sequence and facilitate the sequencing. The complete 16S-23S sequences from 08 strains were amplified through PCR using the primers designed in our lab. The 16S-23S sequences obtained were compared with 52 others sequences entries in GenBank database. The results revealed a higher level of variation than that found in 16S gene sequences, with similarity values ranging from 0.79-1.00. The dendogram based on similarity data revealed 5 main groups. This spacer sequence contains two genes for tRNA (tRNAala and tRNAile). The sequence analysis of the tRNA content showed a conserved region with a few differences in the nucleotide composition.Sociedade Brasileira de Microbiologia2007-03-01info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersiontext/htmlhttp://old.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822007000100033Brazilian Journal of Microbiology v.38 n.1 2007reponame:Brazilian Journal of Microbiologyinstname:Sociedade Brasileira de Microbiologia (SBM)instacron:SBM10.1590/S1517-83822007000100033info:eu-repo/semantics/openAccessMartinati,Juliana CamargoPacheco,Flávia Tereza HansenMiranda,Vitor Fernandes Oliveira deTsai,Siu Muieng2007-04-17T00:00:00Zoai:scielo:S1517-83822007000100033Revistahttps://www.scielo.br/j/bjm/ONGhttps://old.scielo.br/oai/scielo-oai.phpbjm@sbmicrobiologia.org.br||mbmartin@usp.br1678-44051517-8382opendoar:2007-04-17T00:00Brazilian Journal of Microbiology - Sociedade Brasileira de Microbiologia (SBM)false
dc.title.none.fl_str_mv 16s-23S rDNA: polymorphisms and their use for detection and identification of Xylella fastidiosa strains
title 16s-23S rDNA: polymorphisms and their use for detection and identification of Xylella fastidiosa strains
spellingShingle 16s-23S rDNA: polymorphisms and their use for detection and identification of Xylella fastidiosa strains
Martinati,Juliana Camargo
Genetic diversity
16S-23S rDNA
intergenic spacer
identification
detection
title_short 16s-23S rDNA: polymorphisms and their use for detection and identification of Xylella fastidiosa strains
title_full 16s-23S rDNA: polymorphisms and their use for detection and identification of Xylella fastidiosa strains
title_fullStr 16s-23S rDNA: polymorphisms and their use for detection and identification of Xylella fastidiosa strains
title_full_unstemmed 16s-23S rDNA: polymorphisms and their use for detection and identification of Xylella fastidiosa strains
title_sort 16s-23S rDNA: polymorphisms and their use for detection and identification of Xylella fastidiosa strains
author Martinati,Juliana Camargo
author_facet Martinati,Juliana Camargo
Pacheco,Flávia Tereza Hansen
Miranda,Vitor Fernandes Oliveira de
Tsai,Siu Mui
author_role author
author2 Pacheco,Flávia Tereza Hansen
Miranda,Vitor Fernandes Oliveira de
Tsai,Siu Mui
author2_role author
author
author
dc.contributor.author.fl_str_mv Martinati,Juliana Camargo
Pacheco,Flávia Tereza Hansen
Miranda,Vitor Fernandes Oliveira de
Tsai,Siu Mui
dc.subject.por.fl_str_mv Genetic diversity
16S-23S rDNA
intergenic spacer
identification
detection
topic Genetic diversity
16S-23S rDNA
intergenic spacer
identification
detection
description Strains of Xylella fastidiosa from several hosts (coffee, citrus, grape, almond, oleander, peach, plum, etc.) were characterized by analyzing the content of the nucleotide sequences of 16S-23S rDNA (coding for a small subunit ribosomal RNA) spacer region (ITS). Current methods for sequencing the ITS region yields partial sequences that do not contribute with significant information. According to this fact, new primers have been designed in order to obtain a complete sequence and facilitate the sequencing. The complete 16S-23S sequences from 08 strains were amplified through PCR using the primers designed in our lab. The 16S-23S sequences obtained were compared with 52 others sequences entries in GenBank database. The results revealed a higher level of variation than that found in 16S gene sequences, with similarity values ranging from 0.79-1.00. The dendogram based on similarity data revealed 5 main groups. This spacer sequence contains two genes for tRNA (tRNAala and tRNAile). The sequence analysis of the tRNA content showed a conserved region with a few differences in the nucleotide composition.
publishDate 2007
dc.date.none.fl_str_mv 2007-03-01
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822007000100033
url http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822007000100033
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv 10.1590/S1517-83822007000100033
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv text/html
dc.publisher.none.fl_str_mv Sociedade Brasileira de Microbiologia
publisher.none.fl_str_mv Sociedade Brasileira de Microbiologia
dc.source.none.fl_str_mv Brazilian Journal of Microbiology v.38 n.1 2007
reponame:Brazilian Journal of Microbiology
instname:Sociedade Brasileira de Microbiologia (SBM)
instacron:SBM
instname_str Sociedade Brasileira de Microbiologia (SBM)
instacron_str SBM
institution SBM
reponame_str Brazilian Journal of Microbiology
collection Brazilian Journal of Microbiology
repository.name.fl_str_mv Brazilian Journal of Microbiology - Sociedade Brasileira de Microbiologia (SBM)
repository.mail.fl_str_mv bjm@sbmicrobiologia.org.br||mbmartin@usp.br
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