16s-23S rDNA: polymorphisms and their use for detection and identification of Xylella fastidiosa strains
Autor(a) principal: | |
---|---|
Data de Publicação: | 2007 |
Outros Autores: | , , |
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. |
id |
SBM-1_5973c6af9021c56bb1fda6ec051c6389 |
---|---|
oai_identifier_str |
oai:scielo:S1517-83822007000100033 |
network_acronym_str |
SBM-1 |
network_name_str |
Brazilian Journal of Microbiology |
repository_id_str |
|
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 |
_version_ |
1752122200996970496 |