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Registro Completo |
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Biblioteca(s): |
Embrapa Agricultura Digital; Embrapa Gado de Corte. |
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Data corrente: |
02/01/2014 |
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Data da última atualização: |
22/01/2020 |
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Tipo da produção científica: |
Resumo em Anais de Congresso |
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Autoria: |
CINTRA, L. C.; ZERLOTINI, A.; LOBO, F. P.; SILVA, F. R. da; GIACHETTO, P. F.; KUSER-FALCÃO, P. R.; SILVA, L. O. C. da; EGITO, A. A. do; SIQUEIRA, F.; SILVA, N. M. A. da; PAIVA, S. R.; YAMAGISHI, M. E. B.; CAETANO, A. R. |
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Afiliação: |
LEANDRO CARRIJO CINTRA, CNPTIA; ADHEMAR ZERLOTINI NETO, CNPTIA; FRANCISCO PEREIRA LOBO, CNPTIA; FELIPE RODRIGUES DA SILVA, CNPTIA; POLIANA FERNANDA GIACHETTO, CNPTIA; PAULA REGINA KUSER FALCAO, CNPTIA; LUIZ OTAVIO CAMPOS DA SILVA, CNPGC; ANDREA ALVES DO EGITO, CNPGC; FABIANE SIQUEIRA, CNPGC; NAIARA MILAGRES AUGUSTO DA SILVA, CENARGEN; SAMUEL REZENDE PAIVA, Cenargen; MICHEL EDUARDO BELEZA YAMAGISHI, CNPTIA; ALEXANDRE RODRIGUES CAETANO, CENARGEN. |
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Título: |
Sequencing and de novo genome assembly of a nelore (Bos indicus) bull. |
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Ano de publicação: |
2013 |
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Fonte/Imprenta: |
In: INTERNATIONAL PLANT & ANIMAL GENOME, 21., 2013, San Diego. [Abstracts...]. [S.l.: s.n.], 2013. |
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Páginas: |
Não paginado. |
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Idioma: |
Inglês
Português |
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Notas: |
Pôster 0522. |
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Conteúdo: |
Bos indicus cattle breeds have been extensively used for dairy and beef production in tropical climates and present several natural adaptations to biotic and abiotic stresses found in these regions of the world. As breeder associations stride towards incorporating genomic tools into ongoing genetic evaluations and breeding programs to improve productivity and beef and milk quality traits, a (B. indicus) genome assembly represents an essential tool which will be vital to help identify and understand the underlying genetic variations that distinguish taurine and indicine cattle, which have diverged >250,000 years ago. DNA obtained from semen from a Nelore bull born in 1987, with an estimated cumulative inbreeding coefficient of 29.4%, and that can be traced to animals imported from India, was used to produce 100bp paired-end sequences from short (300 and 700bp) and long insert (3, 5 and 10 kbp) libraries, with an Illumina HiSeq platform. A total of 120Gbp were sequenced, corresponding to 45x raw coverage of the genome. The SOAP de novo assembler was used to build contigs and scaffolding. Several parameters sets were evaluated to obtain the best assembly based on the number of scaffolds, number of bases in scaffolds, N50, and total gap length. The best assembly obtained so far contains 2.7Gbp, 15,103 scaffolds with N50 of 649Kbp, and 756Mbp of gaps. Current results are being used to target additional sequencing of specific libraries to improve scaffold assembly. In addition, different sequencing technologies are also under evaluation for generating additional data to improve sequence assembly quality before comparisons with the reference (B. taurus) sequence are performed. MenosBos indicus cattle breeds have been extensively used for dairy and beef production in tropical climates and present several natural adaptations to biotic and abiotic stresses found in these regions of the world. As breeder associations stride towards incorporating genomic tools into ongoing genetic evaluations and breeding programs to improve productivity and beef and milk quality traits, a (B. indicus) genome assembly represents an essential tool which will be vital to help identify and understand the underlying genetic variations that distinguish taurine and indicine cattle, which have diverged >250,000 years ago. DNA obtained from semen from a Nelore bull born in 1987, with an estimated cumulative inbreeding coefficient of 29.4%, and that can be traced to animals imported from India, was used to produce 100bp paired-end sequences from short (300 and 700bp) and long insert (3, 5 and 10 kbp) libraries, with an Illumina HiSeq platform. A total of 120Gbp were sequenced, corresponding to 45x raw coverage of the genome. The SOAP de novo assembler was used to build contigs and scaffolding. Several parameters sets were evaluated to obtain the best assembly based on the number of scaffolds, number of bases in scaffolds, N50, and total gap length. The best assembly obtained so far contains 2.7Gbp, 15,103 scaffolds with N50 of 649Kbp, and 756Mbp of gaps. Current results are being used to target additional sequencing of specific libraries to improve scaffold assembly. In addition, di... Mostrar Tudo |
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Palavras-Chave: |
Bioinformática; Sequenciamento de genoma. |
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Thesagro: |
Bos indicus. |
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Thesaurus Nal: |
bioinformatics; genome assembly; Nellore. |
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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/94595/1/P0522.odt
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Marc: |
LEADER 02729nam a2200349 a 4500
001 1974758
005 2020-01-22
008 2013 bl uuuu u00u1 u #d
100 1 $aCINTRA, L. C.
245 $aSequencing and de novo genome assembly of a nelore (Bos indicus) bull.$h[electronic resource]
260 $aIn: INTERNATIONAL PLANT & ANIMAL GENOME, 21., 2013, San Diego. [Abstracts...]. [S.l.: s.n.]$c2013
300 $aNão paginado.
500 $aPôster 0522.
520 $aBos indicus cattle breeds have been extensively used for dairy and beef production in tropical climates and present several natural adaptations to biotic and abiotic stresses found in these regions of the world. As breeder associations stride towards incorporating genomic tools into ongoing genetic evaluations and breeding programs to improve productivity and beef and milk quality traits, a (B. indicus) genome assembly represents an essential tool which will be vital to help identify and understand the underlying genetic variations that distinguish taurine and indicine cattle, which have diverged >250,000 years ago. DNA obtained from semen from a Nelore bull born in 1987, with an estimated cumulative inbreeding coefficient of 29.4%, and that can be traced to animals imported from India, was used to produce 100bp paired-end sequences from short (300 and 700bp) and long insert (3, 5 and 10 kbp) libraries, with an Illumina HiSeq platform. A total of 120Gbp were sequenced, corresponding to 45x raw coverage of the genome. The SOAP de novo assembler was used to build contigs and scaffolding. Several parameters sets were evaluated to obtain the best assembly based on the number of scaffolds, number of bases in scaffolds, N50, and total gap length. The best assembly obtained so far contains 2.7Gbp, 15,103 scaffolds with N50 of 649Kbp, and 756Mbp of gaps. Current results are being used to target additional sequencing of specific libraries to improve scaffold assembly. In addition, different sequencing technologies are also under evaluation for generating additional data to improve sequence assembly quality before comparisons with the reference (B. taurus) sequence are performed.
650 $abioinformatics
650 $agenome assembly
650 $aNellore
650 $aBos indicus
653 $aBioinformática
653 $aSequenciamento de genoma
700 1 $aZERLOTINI, A.
700 1 $aLOBO, F. P.
700 1 $aSILVA, F. R. da
700 1 $aGIACHETTO, P. F.
700 1 $aKUSER-FALCÃO, P. R.
700 1 $aSILVA, L. O. C. da
700 1 $aEGITO, A. A. do
700 1 $aSIQUEIRA, F.
700 1 $aSILVA, N. M. A. da
700 1 $aPAIVA, S. R.
700 1 $aYAMAGISHI, M. E. B.
700 1 $aCAETANO, A. R.
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Registro original: |
Embrapa Agricultura Digital (CNPTIA) |
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Registro Completo
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Biblioteca(s): |
Embrapa Hortaliças. |
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Data corrente: |
02/08/2001 |
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Data da última atualização: |
02/08/2001 |
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Autoria: |
VILLAS BOAS, G. L.; FRANCA, F. H.; MACEDO, N.; MOITA, A. W. |
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Afiliação: |
EMBRAPA-CNPH, Brasilia, DF. |
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Título: |
Avaliacao da preferencia de Bemisia argentifolii por diferentes especies de plantas. |
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Ano de publicação: |
2001 |
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Fonte/Imprenta: |
Horticultura Brasileira, Brasilia, v.19, n.2, p.131-134, jul. 2001. |
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Idioma: |
Português |
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Palavras-Chave: |
Abobrinha; Brasil; Brasilia; Brocolos; Cucumber; Distrito Federal; Eggplant; Euphorbia pulcherima; Host plant; Oviposicao; Pest insect; Poinsetia; Poinsettia; Preference feeding; Soybean; Sweet pepper; Whitefly. |
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Thesagro: |
Berinjela; Brassica Oleracea Botrytis; Brassica Oleracea Capitata; Capsicum Annuum; Cerrado; Cucumis Sativus; Cucúrbita Pepo; Feijão; Inseto; Lycopersicon Esculentum; Mandioca; Manihot Esculenta; Milho; Mosca Branca; Pepino; Phaseolus Vulgaris; Pimentão; Planta Hospedeira; Praga; Preferência Alimentar; Repolho; Soja; Solanum Melongena; Tomate; Zea Mays. |
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Thesaurus NAL: |
Bemisia argentifolii; Brazil; broccoli; cabbage; cassava; corn; dry beans; oviposition; tomatoes; zucchini. |
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Categoria do assunto: |
-- |
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URL: |
https://www.scielo.br/scielo.php?script=sci_pdf&pid=S0102-05362001000200007&lng=pt&nrm=iso&tlng=pt
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Marc: |
LEADER 01909naa a2200769 a 4500
001 1770260
005 2001-08-02
008 2001 bl uuuu u00u1 u #d
100 1 $aVILLAS BOAS, G. L.
245 $aAvaliacao da preferencia de Bemisia argentifolii por diferentes especies de plantas.
260 $c2001
650 $aBemisia argentifolii
650 $aBrazil
650 $abroccoli
650 $acabbage
650 $acassava
650 $acorn
650 $adry beans
650 $aoviposition
650 $atomatoes
650 $azucchini
650 $aBerinjela
650 $aBrassica Oleracea Botrytis
650 $aBrassica Oleracea Capitata
650 $aCapsicum Annuum
650 $aCerrado
650 $aCucumis Sativus
650 $aCucúrbita Pepo
650 $aFeijão
650 $aInseto
650 $aLycopersicon Esculentum
650 $aMandioca
650 $aManihot Esculenta
650 $aMilho
650 $aMosca Branca
650 $aPepino
650 $aPhaseolus Vulgaris
650 $aPimentão
650 $aPlanta Hospedeira
650 $aPraga
650 $aPreferência Alimentar
650 $aRepolho
650 $aSoja
650 $aSolanum Melongena
650 $aTomate
650 $aZea Mays
653 $aAbobrinha
653 $aBrasil
653 $aBrasilia
653 $aBrocolos
653 $aCucumber
653 $aDistrito Federal
653 $aEggplant
653 $aEuphorbia pulcherima
653 $aHost plant
653 $aOviposicao
653 $aPest insect
653 $aPoinsetia
653 $aPoinsettia
653 $aPreference feeding
653 $aSoybean
653 $aSweet pepper
653 $aWhitefly
700 1 $aFRANCA, F. H.
700 1 $aMACEDO, N.
700 1 $aMOITA, A. W.
773 $tHorticultura Brasileira, Brasilia$gv.19, n.2, p.131-134, jul. 2001.
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Embrapa Hortaliças (CNPH) |
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