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Registro Completo |
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Biblioteca(s): |
Embrapa Pesca e Aquicultura. |
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Data corrente: |
18/04/2016 |
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Data da última atualização: |
18/04/2016 |
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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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Thesagro: |
Peixe. |
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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 02509naa a2200325 a 4500
001 2043575
005 2016-04-18
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 $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
650 $aPeixe
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.
773 $tIn: PLANT & ANIMAL GENOME CONFERENCE, 24., 2016, San Diego, CA. [Abstracts...]. San Diego: [s.$gn.], 2016.
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Registro original: |
Embrapa Pesca e Aquicultura (CNPASA) |
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 | Acesso ao texto completo restrito à biblioteca da Embrapa Algodão. Para informações adicionais entre em contato com cnpa.biblioteca@embrapa.br. |
Registro Completo
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Biblioteca(s): |
Embrapa Algodão. |
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Data corrente: |
09/04/2001 |
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Data da última atualização: |
09/04/2001 |
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Autoria: |
VIEIRA, D. J.; NOBREGA, L. B. da; AZEVEDO, M. P. de; BELTRAO, N. E. de M. |
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Afiliação: |
Embrapa Algodao. |
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Título: |
Misturas de herbicidas e populacoes de plantas no controle de plantas daninhas em algodoeiro herbaceo. |
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Ano de publicação: |
1999 |
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Fonte/Imprenta: |
Revista de Oleaginosas e fibrosas, v.3, n-3, p.143-152, 1999. |
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Idioma: |
Português |
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Palavras-Chave: |
Brasil; Fiber; Fitotoxidade; Injuries; Paraiba; Plant; Plantas infestantes. |
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Thesagro: |
Algodão; Densidade de Plantio; Fibra; Gossypium Hirsutum. |
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Thesaurus NAL: |
density; Sousa. |
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Categoria do assunto: |
-- |
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Marc: |
LEADER 00821naa a2200301 a 4500
001 1271837
005 2001-04-09
008 1999 bl uuuu u00u1 u #d
100 1 $aVIEIRA, D. J.
245 $aMisturas de herbicidas e populacoes de plantas no controle de plantas daninhas em algodoeiro herbaceo.
260 $c1999
650 $adensity
650 $aSousa
650 $aAlgodão
650 $aDensidade de Plantio
650 $aFibra
650 $aGossypium Hirsutum
653 $aBrasil
653 $aFiber
653 $aFitotoxidade
653 $aInjuries
653 $aParaiba
653 $aPlant
653 $aPlantas infestantes
700 1 $aNOBREGA, L. B. da
700 1 $aAZEVEDO, M. P. de
700 1 $aBELTRAO, N. E. de M.
773 $tRevista de Oleaginosas e fibrosas$gv.3, n-3, p.143-152, 1999.
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Registro original: |
Embrapa Algodão (CNPA) |
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