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Registro Completo |
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Biblioteca(s): |
Embrapa Agricultura Digital. |
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Data corrente: |
26/02/2016 |
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Data da última atualização: |
21/01/2020 |
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Tipo da produção científica: |
Resumo em Anais de Congresso |
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Autoria: |
LOBO, F. P.; CINTRA, L. C.; VARELA, E. S.; ALVES, A. L.; SILVA, N. M. A. da; IANELLA, P.; PAIVA, S. R.; CAETANO, A. R. |
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Afiliação: |
FRANCISCO PEREIRA LOBO, CNPTIA; LEANDRO CARRIJO CINTRA, CNPTIA; EDUARDO SOUSA VARELA, CNPASA; ANDERSON LUIS ALVES, CNPASA; NAIARA MILAGRES AUGUSTO DA SILVA, CENARGEN; PATRICIA IANELLA, CENARGEN; SAMUEL REZENDE PAIVA, SRI; ALEXANDRE RODRIGUES CAETANO, CENARGEN. |
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Título: |
Genome Sequencing and de novo assembly of the South American Tiger Catfish (Pseudoplatystoma punctifer). |
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Ano de publicação: |
2016 |
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Fonte/Imprenta: |
In: PLANT & ANIMAL GENOME CONFERENCE, 24., 2016, San Diego, CA. [Abstracts...]. San Diego: [s.n.], 2016. |
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Páginas: |
Não paginado. |
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Idioma: |
Inglês |
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Notas: |
PAG 2016. Pôster P0481. |
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Conteúdo: |
The South American Tiger Catfish (Pseudoplatystoma punctifer) is a freshwater fish species naturally found in the Amazon river basin with an important role in local community and commercial fishing. Recent efforts to domesticate and raise the species in aquaculture systems has led to >10-fold production increases in the last decade. Current production levels are >15,000mt/year. Recently stablished initiatives to structure genetic improvement programs for increasing productivity-associated traits could greatly benefit from using genomic tools for broodstock management and assisted genetic evaluations and breeding. Multiple shotgun libraries with two different insert sizes and multiple Nextera mate pair libraries with three different sizes were sequenced (2x160bps) with Illumina HiSeq2000 technology. A total of 124.8Gbp quality-filtered nucleotides were sequenced which amount to 85x mean genome coverage, considering previously published information (C-value = 1.12pg = 1.095Gbp). Initial sequence assembly was performed with SOAPdenovo and generated 686.171 scaffolds spanning 1.41 Gbp (N50 scaffold length: 908Kbp, L50 scaffold count: 420). Gene model prediction is underway with MAKER2 using as extrinsic evidence protein and EST data from phylogenetically related taxa. This represents the first report of a draft genome sequence for this species, which will be a valuable resource for basic biology studies, and marker detection/selection for use in genetic improvement and resource conservation activities. MenosThe South American Tiger Catfish (Pseudoplatystoma punctifer) is a freshwater fish species naturally found in the Amazon river basin with an important role in local community and commercial fishing. Recent efforts to domesticate and raise the species in aquaculture systems has led to >10-fold production increases in the last decade. Current production levels are >15,000mt/year. Recently stablished initiatives to structure genetic improvement programs for increasing productivity-associated traits could greatly benefit from using genomic tools for broodstock management and assisted genetic evaluations and breeding. Multiple shotgun libraries with two different insert sizes and multiple Nextera mate pair libraries with three different sizes were sequenced (2x160bps) with Illumina HiSeq2000 technology. A total of 124.8Gbp quality-filtered nucleotides were sequenced which amount to 85x mean genome coverage, considering previously published information (C-value = 1.12pg = 1.095Gbp). Initial sequence assembly was performed with SOAPdenovo and generated 686.171 scaffolds spanning 1.41 Gbp (N50 scaffold length: 908Kbp, L50 scaffold count: 420). Gene model prediction is underway with MAKER2 using as extrinsic evidence protein and EST data from phylogenetically related taxa. This represents the first report of a draft genome sequence for this species, which will be a valuable resource for basic biology studies, and marker detection/selection for use in genetic improvement and resource ... Mostrar Tudo |
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Palavras-Chave: |
Bioinformática; Genômica; Sequenciamento de genoma. |
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Thesaurus Nal: |
Bioinformatics; Genome assembly; Genomics; Sequence analysis. |
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Categoria do assunto: |
X Pesquisa, Tecnologia e Engenharia |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/140246/1/PAG-p0481.pdf
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Marc: |
LEADER 02463nam a2200301 a 4500
001 2038884
005 2020-01-21
008 2016 bl uuuu u00u1 u #d
100 1 $aLOBO, F. P.
245 $aGenome Sequencing and de novo assembly of the South American Tiger Catfish (Pseudoplatystoma punctifer).$h[electronic resource]
260 $aIn: PLANT & ANIMAL GENOME CONFERENCE, 24., 2016, San Diego, CA. [Abstracts...]. San Diego: [s.n.]$c2016
300 $aNão paginado.
500 $aPAG 2016. Pôster P0481.
520 $aThe South American Tiger Catfish (Pseudoplatystoma punctifer) is a freshwater fish species naturally found in the Amazon river basin with an important role in local community and commercial fishing. Recent efforts to domesticate and raise the species in aquaculture systems has led to >10-fold production increases in the last decade. Current production levels are >15,000mt/year. Recently stablished initiatives to structure genetic improvement programs for increasing productivity-associated traits could greatly benefit from using genomic tools for broodstock management and assisted genetic evaluations and breeding. Multiple shotgun libraries with two different insert sizes and multiple Nextera mate pair libraries with three different sizes were sequenced (2x160bps) with Illumina HiSeq2000 technology. A total of 124.8Gbp quality-filtered nucleotides were sequenced which amount to 85x mean genome coverage, considering previously published information (C-value = 1.12pg = 1.095Gbp). Initial sequence assembly was performed with SOAPdenovo and generated 686.171 scaffolds spanning 1.41 Gbp (N50 scaffold length: 908Kbp, L50 scaffold count: 420). Gene model prediction is underway with MAKER2 using as extrinsic evidence protein and EST data from phylogenetically related taxa. This represents the first report of a draft genome sequence for this species, which will be a valuable resource for basic biology studies, and marker detection/selection for use in genetic improvement and resource conservation activities.
650 $aBioinformatics
650 $aGenome assembly
650 $aGenomics
650 $aSequence analysis
653 $aBioinformática
653 $aGenômica
653 $aSequenciamento de genoma
700 1 $aCINTRA, L. C.
700 1 $aVARELA, E. S.
700 1 $aALVES, A. L.
700 1 $aSILVA, N. M. A. da
700 1 $aIANELLA, P.
700 1 $aPAIVA, S. R.
700 1 $aCAETANO, A. R.
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Esconder MarcMostrar Marc Completo |
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Registro original: |
Embrapa Agricultura Digital (CNPTIA) |
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| Registros recuperados : 8 | |
| 2. |  | OLIVEIRA, V. V. M. de; COELHO FILHO, M. A.; COELHO, E. F.; GUIMARÃES, M. J. M.; BRITO, M. S. Estimativa das superfícies foliares de plantas de lima ácida 'Tahiti' com tamanhos e idades diferente, utilizando método não destrutivo. In: CONGRESSO BRASILEIRO DE ENGENHARIA AGRÍCOLA, 29.; CONGRESSO LATINOAMERICANO Y DEL CARIBE DE INGENIERÍA AGRÍCOLA, 9, 2010, Vitória, ES. A engenharia agrícola e o desenvolvimento das pequenas propriedades rurais. Anais... Vitória: CONBEA, 2010. 1 CD ROM. pdf TC0796.2| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Mandioca e Fruticultura. |
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| 4. | | BRITO, M. S. de; SOUZA, Y. F.; SOUSA, K. R. de; SALLES, H. O.; ANDRADE, L. B. da S. Isolamento de um inibidor de tripsina de sementes de Hymenaea courbaril Lee & Langenh por cromatografia de troca iônica. In: ENCONTRO DE INICIAÇÃO CIENTÍFICA DA UNIVERSIDADE ESTADUAL VALE DO ACARAÚ, 3., 2011, Sobral. Ciência, cultura e inovação: desafios da universidade contemporânea. Sobral: UVA, 2012. p. 17-23.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Caprinos e Ovinos. |
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| 5. | | OLIVEIRA, T. dos R. de; SOUSA, E. M. de; BRITO, M. S. de; FIGUEIREDO, M. F.; SALLES, H. O.; ANDRADE, L. B. da S. Atividade de glicosidases em sementes de Caesalpinia pyramidalis Tul. In: REUNIÃO ANUAL DA SOCIEDADE BRASILEIRA PARA O PROGRESSO DA CIÊNCIA, 65., 2013, Recife. Ciência para um novo Brasil. Recife: UFPE: SBPC, 2013. 2 p.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Caprinos e Ovinos. |
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| 6. | | LIMA, T. C.; ALVES, J. P. de A.; BRITO, M. S. de; FIGUEIREDO, M. F.; SALLES, H. O.; ANDRADE, L. B. da S. Caracterização de uma amilase de sementes de Libidibia ferrea (Mart. ex. Tul.). In: REUNIÃO ANUAL DA SOCIEDADE BRASILEIRA PARA O PROGRESSO DA CIÊNCIA, 65., 2013, Recife. Ciência para um novo Brasil. Recife: UFPE: SBPC, 2013. 2 p.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Caprinos e Ovinos. |
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| 7. | | MALTA, M. R.; ROSA, S. D. V. F. da; BORÉM, F. M.; GIOMO, G. S.; SANTOS, J. B.; FASSIO, L. O.; LIMA, P. M.; BRITO, M. S. Qualidade do café submetido a diferentes métodos de processamento e secagem. In: CONGRESSO BRASILEIRO DE PESQUISAS CAFEEIRAS, 37., 2011, Poços de Caldas. Anais... Brasília, DF: Embrapa Café, 2011.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Café. |
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| 8. | | MALTA, M. R.; ROSA, S. D. V. F. da; SANTOS, J. B.; FASSIO, L. O.; LIMA, P. M.; BRITO, M. S. Influência da secagem lenta e rápida na qualidade do café arábica. In: CONGRESSO BRASILEIRO DE PESQUISAS CAFEEIRAS, 37., 2011, Poços de Caldas. Anais... Brasília, DF: Embrapa Café, 2011.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Café. |
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| Registros recuperados : 8 | |
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