Dissecting the sugarcane expressed sequence tag (SUCEST) database: unraveling flower-specific genes

Detalhes bibliográficos
Autor(a) principal: Figueiredo,R.C.
Data de Publicação: 2001
Outros Autores: Brito,M.S., Figueiredo,L.H.M., Quiapin,A.C., Vitorelli,P.M., Silva,L.R., Santos,R.V., Molfetta,J.B., Goldman,G.H., Goldman,M.H.S.
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Genetics and Molecular Biology
Texto Completo: http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572001000100012
Resumo: There are almost 260,000 independent clones sequenced from the 5’ end in the Sugarcane Expressed Sequence Tag (SUCEST) database, which have been obtained from 37 cDNA libraries prepared from different tissues. This large number of expressed sequence tags (ESTs) provides an opportunity, unprecedented in plants, to perform ‘digital differential screening’ on selected cDNA libraries. In general, the frequency of a particular EST correlates with transcript accumulation in the tissues from which the cDNA libraries were constructed, so it is possible to compare the whole transcriptome from different tissues using computer-assisted analysis of an EST database. In our research we analyzed sugarcane ESTs according to tissue expression and identified more than 1,000 putative flower-specific genes. The fact that using this technique we were able to identify sugarcane homologues of several genes previously described as pollen-specific justifies this method of assessing tissue specificity. In addition, ESTs similar to genes specific to reproductive organs were detected e.g. a sugarcane gene encoding a meiotic protein essential for assembly of the synaptonemal complex and normal synapsis. This approach also allowed the identification of many flower-specific anonymous sequences that are good candidates for being novel genes involved in plant reproduction. This paper describes the analysis of the gene expression levels of 24 EST clusters during flower development using a ‘digital northern blot’ constructed from direct EST counts made on the non-normalized sugarcane cDNA libraries.
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spelling Dissecting the sugarcane expressed sequence tag (SUCEST) database: unraveling flower-specific genesThere are almost 260,000 independent clones sequenced from the 5’ end in the Sugarcane Expressed Sequence Tag (SUCEST) database, which have been obtained from 37 cDNA libraries prepared from different tissues. This large number of expressed sequence tags (ESTs) provides an opportunity, unprecedented in plants, to perform ‘digital differential screening’ on selected cDNA libraries. In general, the frequency of a particular EST correlates with transcript accumulation in the tissues from which the cDNA libraries were constructed, so it is possible to compare the whole transcriptome from different tissues using computer-assisted analysis of an EST database. In our research we analyzed sugarcane ESTs according to tissue expression and identified more than 1,000 putative flower-specific genes. The fact that using this technique we were able to identify sugarcane homologues of several genes previously described as pollen-specific justifies this method of assessing tissue specificity. In addition, ESTs similar to genes specific to reproductive organs were detected e.g. a sugarcane gene encoding a meiotic protein essential for assembly of the synaptonemal complex and normal synapsis. This approach also allowed the identification of many flower-specific anonymous sequences that are good candidates for being novel genes involved in plant reproduction. This paper describes the analysis of the gene expression levels of 24 EST clusters during flower development using a ‘digital northern blot’ constructed from direct EST counts made on the non-normalized sugarcane cDNA libraries.Sociedade Brasileira de Genética2001-12-01info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersiontext/htmlhttp://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572001000100012Genetics and Molecular Biology v.24 n.1-4 2001reponame:Genetics and Molecular Biologyinstname:Sociedade Brasileira de Genética (SBG)instacron:SBG10.1590/S1415-47572001000100012info:eu-repo/semantics/openAccessFigueiredo,R.C.Brito,M.S.Figueiredo,L.H.M.Quiapin,A.C.Vitorelli,P.M.Silva,L.R.Santos,R.V.Molfetta,J.B.Goldman,G.H.Goldman,M.H.S.eng2002-06-27T00:00:00Zoai:scielo:S1415-47572001000100012Revistahttp://www.gmb.org.br/ONGhttps://old.scielo.br/oai/scielo-oai.php||editor@gmb.org.br1678-46851415-4757opendoar:2002-06-27T00:00Genetics and Molecular Biology - Sociedade Brasileira de Genética (SBG)false
dc.title.none.fl_str_mv Dissecting the sugarcane expressed sequence tag (SUCEST) database: unraveling flower-specific genes
title Dissecting the sugarcane expressed sequence tag (SUCEST) database: unraveling flower-specific genes
spellingShingle Dissecting the sugarcane expressed sequence tag (SUCEST) database: unraveling flower-specific genes
Figueiredo,R.C.
title_short Dissecting the sugarcane expressed sequence tag (SUCEST) database: unraveling flower-specific genes
title_full Dissecting the sugarcane expressed sequence tag (SUCEST) database: unraveling flower-specific genes
title_fullStr Dissecting the sugarcane expressed sequence tag (SUCEST) database: unraveling flower-specific genes
title_full_unstemmed Dissecting the sugarcane expressed sequence tag (SUCEST) database: unraveling flower-specific genes
title_sort Dissecting the sugarcane expressed sequence tag (SUCEST) database: unraveling flower-specific genes
author Figueiredo,R.C.
author_facet Figueiredo,R.C.
Brito,M.S.
Figueiredo,L.H.M.
Quiapin,A.C.
Vitorelli,P.M.
Silva,L.R.
Santos,R.V.
Molfetta,J.B.
Goldman,G.H.
Goldman,M.H.S.
author_role author
author2 Brito,M.S.
Figueiredo,L.H.M.
Quiapin,A.C.
Vitorelli,P.M.
Silva,L.R.
Santos,R.V.
Molfetta,J.B.
Goldman,G.H.
Goldman,M.H.S.
author2_role author
author
author
author
author
author
author
author
author
dc.contributor.author.fl_str_mv Figueiredo,R.C.
Brito,M.S.
Figueiredo,L.H.M.
Quiapin,A.C.
Vitorelli,P.M.
Silva,L.R.
Santos,R.V.
Molfetta,J.B.
Goldman,G.H.
Goldman,M.H.S.
description There are almost 260,000 independent clones sequenced from the 5’ end in the Sugarcane Expressed Sequence Tag (SUCEST) database, which have been obtained from 37 cDNA libraries prepared from different tissues. This large number of expressed sequence tags (ESTs) provides an opportunity, unprecedented in plants, to perform ‘digital differential screening’ on selected cDNA libraries. In general, the frequency of a particular EST correlates with transcript accumulation in the tissues from which the cDNA libraries were constructed, so it is possible to compare the whole transcriptome from different tissues using computer-assisted analysis of an EST database. In our research we analyzed sugarcane ESTs according to tissue expression and identified more than 1,000 putative flower-specific genes. The fact that using this technique we were able to identify sugarcane homologues of several genes previously described as pollen-specific justifies this method of assessing tissue specificity. In addition, ESTs similar to genes specific to reproductive organs were detected e.g. a sugarcane gene encoding a meiotic protein essential for assembly of the synaptonemal complex and normal synapsis. This approach also allowed the identification of many flower-specific anonymous sequences that are good candidates for being novel genes involved in plant reproduction. This paper describes the analysis of the gene expression levels of 24 EST clusters during flower development using a ‘digital northern blot’ constructed from direct EST counts made on the non-normalized sugarcane cDNA libraries.
publishDate 2001
dc.date.none.fl_str_mv 2001-12-01
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dc.relation.none.fl_str_mv 10.1590/S1415-47572001000100012
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dc.publisher.none.fl_str_mv Sociedade Brasileira de Genética
publisher.none.fl_str_mv Sociedade Brasileira de Genética
dc.source.none.fl_str_mv Genetics and Molecular Biology v.24 n.1-4 2001
reponame:Genetics and Molecular Biology
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