|
|
Registro Completo |
Biblioteca(s): |
Embrapa Agricultura Digital. |
Data corrente: |
02/12/2010 |
Data da última atualização: |
27/01/2020 |
Tipo da produção científica: |
Resumo em Anais de Congresso |
Autoria: |
HERAI, R. H.; YAMAGISHI, M. E. B. |
Afiliação: |
ROBERTO H. HERAI, IB/UNICAMP; MICHEL E. B. YAMAGISHI, CNPTIA. |
Título: |
A bioinformatics approach to detect interchromosomal trans-splicing in bovine full length cDNA databanks. |
Ano de publicação: |
2010 |
Fonte/Imprenta: |
In: PLANT & ANIMAL GENOME CONFERENCE, 18., 2010, San Diego. Abstracts... [S.l.: s.n.], 2010. |
Páginas: |
Não paginado. |
Idioma: |
Inglês |
Notas: |
P869. PAG-XVIII. |
Conteúdo: |
Trans-splicing is an unusual form of RNA processing mechanism where distinct pre-mRNA sequences contribute to the formation of a single mRNA. It is common in nematodes and kinetoplastids, but it is rare in superior organisms. Nevertheless, some recent studies show that trans-splicing, although rare, may be more widespread than believed (Gingeras). Consequently, its identification in large databanks is very important for posteriori experimental confirmation. Recently, we have developed a Bioinformatic methodology that successfully found 16 inter-chromosomal trans-splicing candidate sequences in a large human full length cDNA (FlcDNA) databank (Herai & Yamagishi, in press). Unfortunately, our methodology was supposed to be applied on organisms with high quality reference genome, otherwise the number of false positive candidate sequences turned the analysis prohibitive. The problem is that many important model organisms have only draft assemblies. In order to overcome this problem, we extended our bioinformatics methodology applying additional filtering criteria and ad hoc algorithms necessary to deal with those cases. Using 83,048 bovine FlcDNA transcripts (NCBI, MGC, BGD) and Bos taurus UMD 3.0 genome assembly, our extended methodology successfully found 12 hybrid mRNAs which may be the first instances of bovine inter-chromosomal trans-splicing sequences, since the single reported bovine trans-splicing evidence was an intra-chromosomal instance (Roux et al.). Furthermore, just like in the human case, the bovine candidate sequence gene loci had many inverted repeat sequences which may support the conjecture that those sequences may be part of a non-spliceosome mediated trans-splicing mechanism (Di Segni et al.). MenosTrans-splicing is an unusual form of RNA processing mechanism where distinct pre-mRNA sequences contribute to the formation of a single mRNA. It is common in nematodes and kinetoplastids, but it is rare in superior organisms. Nevertheless, some recent studies show that trans-splicing, although rare, may be more widespread than believed (Gingeras). Consequently, its identification in large databanks is very important for posteriori experimental confirmation. Recently, we have developed a Bioinformatic methodology that successfully found 16 inter-chromosomal trans-splicing candidate sequences in a large human full length cDNA (FlcDNA) databank (Herai & Yamagishi, in press). Unfortunately, our methodology was supposed to be applied on organisms with high quality reference genome, otherwise the number of false positive candidate sequences turned the analysis prohibitive. The problem is that many important model organisms have only draft assemblies. In order to overcome this problem, we extended our bioinformatics methodology applying additional filtering criteria and ad hoc algorithms necessary to deal with those cases. Using 83,048 bovine FlcDNA transcripts (NCBI, MGC, BGD) and Bos taurus UMD 3.0 genome assembly, our extended methodology successfully found 12 hybrid mRNAs which may be the first instances of bovine inter-chromosomal trans-splicing sequences, since the single reported bovine trans-splicing evidence was an intra-chromosomal instance (Roux et al.). Furthermore, jus... Mostrar Tudo |
Palavras-Chave: |
Algoritmo; Bioinformática. |
Thesaurus Nal: |
Algorithms; Bioinformatics; RNA splicing. |
Categoria do assunto: |
-- |
URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/91866/1/869.pdf
|
Marc: |
LEADER 02405nam a2200205 a 4500 001 1868482 005 2020-01-27 008 2010 bl uuuu u00u1 u #d 100 1 $aHERAI, R. H. 245 $aA bioinformatics approach to detect interchromosomal trans-splicing in bovine full length cDNA databanks.$h[electronic resource] 260 $aIn: PLANT & ANIMAL GENOME CONFERENCE, 18., 2010, San Diego. Abstracts... [S.l.: s.n.]$c2010 300 $aNão paginado. 500 $aP869. PAG-XVIII. 520 $aTrans-splicing is an unusual form of RNA processing mechanism where distinct pre-mRNA sequences contribute to the formation of a single mRNA. It is common in nematodes and kinetoplastids, but it is rare in superior organisms. Nevertheless, some recent studies show that trans-splicing, although rare, may be more widespread than believed (Gingeras). Consequently, its identification in large databanks is very important for posteriori experimental confirmation. Recently, we have developed a Bioinformatic methodology that successfully found 16 inter-chromosomal trans-splicing candidate sequences in a large human full length cDNA (FlcDNA) databank (Herai & Yamagishi, in press). Unfortunately, our methodology was supposed to be applied on organisms with high quality reference genome, otherwise the number of false positive candidate sequences turned the analysis prohibitive. The problem is that many important model organisms have only draft assemblies. In order to overcome this problem, we extended our bioinformatics methodology applying additional filtering criteria and ad hoc algorithms necessary to deal with those cases. Using 83,048 bovine FlcDNA transcripts (NCBI, MGC, BGD) and Bos taurus UMD 3.0 genome assembly, our extended methodology successfully found 12 hybrid mRNAs which may be the first instances of bovine inter-chromosomal trans-splicing sequences, since the single reported bovine trans-splicing evidence was an intra-chromosomal instance (Roux et al.). Furthermore, just like in the human case, the bovine candidate sequence gene loci had many inverted repeat sequences which may support the conjecture that those sequences may be part of a non-spliceosome mediated trans-splicing mechanism (Di Segni et al.). 650 $aAlgorithms 650 $aBioinformatics 650 $aRNA splicing 653 $aAlgoritmo 653 $aBioinformática 700 1 $aYAMAGISHI, M. E. B.
Download
Esconder MarcMostrar Marc Completo |
Registro original: |
Embrapa Agricultura Digital (CNPTIA) |
|
Biblioteca |
ID |
Origem |
Tipo/Formato |
Classificação |
Cutter |
Registro |
Volume |
Status |
URL |
Voltar
|
|
| Acesso ao texto completo restrito à biblioteca da Embrapa Gado de Leite. Para informações adicionais entre em contato com cnpgl.biblioteca@embrapa.br. |
Registro Completo
Biblioteca(s): |
Embrapa Gado de Leite. |
Data corrente: |
22/11/2007 |
Data da última atualização: |
10/09/2014 |
Tipo da produção científica: |
Autoria/Organização/Edição de Livros |
Autoria: |
MOREIRA, M. S. de P.; DINIZ, F. H.; SOUZA, A. D. de; CASTRO, C. R. T. de (ed.). |
Afiliação: |
Marne Sidney de Paula Moreira, Embrapa Gado de Leite; Fábio Homero Diniz, Embrapa Gado de Leite; Antônio Domingues de Souza, Emater-MG; Carlos Renato Tavares de Castro, Embrapa Gado de Leite. |
Título: |
Alternativas sustentáveis para produção de leite no estado de Minas Gerais. |
Ano de publicação: |
2007 |
Fonte/Imprenta: |
Juiz de Fora: Embrapa Gado de Leite, 2007. |
Páginas: |
151 p. |
ISBN: |
978-85-85748-92-0 |
Idioma: |
Português |
Palavras-Chave: |
agroecologia; Sustentabilidade; transferência de tecnologias. |
Thesagro: |
Extensão Rural; Produção Orgânica. |
Categoria do assunto: |
-- |
Marc: |
LEADER 00643nam a2200217 a 4500 001 1596437 005 2014-09-10 008 2007 bl uuuu 00u1 u #d 020 $a978-85-85748-92-0 100 1 $aMOREIRA, M. S. de P. 245 $aAlternativas sustentáveis para produção de leite no estado de Minas Gerais. 260 $aJuiz de Fora: Embrapa Gado de Leite$c2007 300 $a151 p. 650 $aExtensão Rural 650 $aProdução Orgânica 653 $aagroecologia 653 $aSustentabilidade 653 $atransferência de tecnologias 700 1 $aDINIZ, F. H. 700 1 $aSOUZA, A. D. de 700 1 $aCASTRO, C. R. T. de
Download
Esconder MarcMostrar Marc Completo |
Registro original: |
Embrapa Gado de Leite (CNPGL) |
|
Biblioteca |
ID |
Origem |
Tipo/Formato |
Classificação |
Cutter |
Registro |
Volume |
Status |
Fechar
|
Nenhum registro encontrado para a expressão de busca informada. |
|
|