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Registro Completo |
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Biblioteca(s): |
Embrapa Suínos e Aves. |
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Data corrente: |
16/06/2016 |
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Data da última atualização: |
09/05/2018 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
PÉRTILLE, F.; BOSAGNA, C. G.; SILVA, V. H. da; BOSCHIERO, C.; NUNES, J. de R. da S.; LEDUR, M. C.; JENSEN, P.; COUTINHO, L. L. |
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Afiliação: |
FÁBIO PÉRTILLE, ESALQ; CARLOS GUERRERO BOSAGNA, Linköping University; VINICIUS HENRIQUE DA SILVA, ESALQ; CLARISSA BOSCHIERO, ESALQ; JOSÉ DE RIBAMAR DA SILVA NUNES, ESALQ; MONICA CORREA LEDUR, CNPSA; PER JENSEN, Linköping University; LUIZ LEHMANN COUTINHO, ESALQ. |
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Título: |
High-throughput and cost-effective chicken genotyping using next-generation sequencing. |
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Ano de publicação: |
2016 |
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Fonte/Imprenta: |
Scientific Reports, v. 6, n. 26929, 2016. |
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DOI: |
10.1038/srep26929 |
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Idioma: |
Inglês |
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Conteúdo: |
Chicken genotyping is becoming common practice in conventional animal breeding improvement. Despite the power of high-throughput methods for genotyping, their high cost limits large scale use in animal breeding and selection. In the present paper we optimized the CornellGBS, an efficient and costeffective genotyping by sequence approach developed in plants, for its application in chickens. Here we describe the successful genotyping of a large number of chickens (462) using CornellGBS approach. Genomic DNA was cleaved with the PstI enzyme, ligated to adapters with barcodes identifying individual animals, and then sequenced on Illumina platform. After filtering parameters were applied, 134,528 SNPs were identified in our experimental population of chickens. Of these SNPs, 67,096 had a minimum taxon call rate of 90% and were considered ?unique tags?. Interestingly, 20.7% of these unique tags have not been previously reported in the dbSNP. Moreover, 92.6% of these SNPs were concordant with a previous Whole Chicken-genome re-sequencing dataset used for validation purposes. The application of CornellGBS in chickens showed high performance to infer SNPs, particularly in exonic regions and microchromosomes. This approach represents a cost-effective (~US$50/sample) and powerful alternative to current genotyping methods, which has the potential to improve wholegenome selection (WGS), and genome-wide association studies (GWAS) in chicken production. |
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Thesagro: |
Avicultura; Melhoramento genético animal; Produção animal. |
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Thesaurus Nal: |
Animal breeding; Poultry production. |
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Categoria do assunto: |
-- |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/144504/1/final8219.pdf
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Marc: |
LEADER 02269naa a2200277 a 4500
001 2047245
005 2018-05-09
008 2016 bl uuuu u00u1 u #d
024 7 $a10.1038/srep26929$2DOI
100 1 $aPÉRTILLE, F.
245 $aHigh-throughput and cost-effective chicken genotyping using next-generation sequencing.$h[electronic resource]
260 $c2016
520 $aChicken genotyping is becoming common practice in conventional animal breeding improvement. Despite the power of high-throughput methods for genotyping, their high cost limits large scale use in animal breeding and selection. In the present paper we optimized the CornellGBS, an efficient and costeffective genotyping by sequence approach developed in plants, for its application in chickens. Here we describe the successful genotyping of a large number of chickens (462) using CornellGBS approach. Genomic DNA was cleaved with the PstI enzyme, ligated to adapters with barcodes identifying individual animals, and then sequenced on Illumina platform. After filtering parameters were applied, 134,528 SNPs were identified in our experimental population of chickens. Of these SNPs, 67,096 had a minimum taxon call rate of 90% and were considered ?unique tags?. Interestingly, 20.7% of these unique tags have not been previously reported in the dbSNP. Moreover, 92.6% of these SNPs were concordant with a previous Whole Chicken-genome re-sequencing dataset used for validation purposes. The application of CornellGBS in chickens showed high performance to infer SNPs, particularly in exonic regions and microchromosomes. This approach represents a cost-effective (~US$50/sample) and powerful alternative to current genotyping methods, which has the potential to improve wholegenome selection (WGS), and genome-wide association studies (GWAS) in chicken production.
650 $aAnimal breeding
650 $aPoultry production
650 $aAvicultura
650 $aMelhoramento genético animal
650 $aProdução animal
700 1 $aBOSAGNA, C. G.
700 1 $aSILVA, V. H. da
700 1 $aBOSCHIERO, C.
700 1 $aNUNES, J. de R. da S.
700 1 $aLEDUR, M. C.
700 1 $aJENSEN, P.
700 1 $aCOUTINHO, L. L.
773 $tScientific Reports$gv. 6, n. 26929, 2016.
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Registro original: |
Embrapa Suínos e Aves (CNPSA) |
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 | Acesso ao texto completo restrito à biblioteca da Embrapa Solos. Para informações adicionais entre em contato com cnps.biblioteca@embrapa.br. |
Registro Completo
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Biblioteca(s): |
Embrapa Florestas; Embrapa Solos. |
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Data corrente: |
04/04/2013 |
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Data da última atualização: |
20/02/2014 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Circulação/Nível: |
A - 1 |
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Autoria: |
TAUBE, P. S.; HANSEL, F. A.; MADUREIRA, L. A. dos S.; TEIXEIRA, W. G. |
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Afiliação: |
Paulo S. Taube, UFSC; FABRICIO AUGUSTO HANSEL, CNPF; Luiz A. dos Santos Madureira, UFSC; WENCESLAU GERALDES TEIXEIRA, CNPS. |
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Título: |
Organic geochemical evaluation of organic acids to assess anthropogenic soil deposits of Central Amazon, Brazil. |
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Ano de publicação: |
2013 |
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Fonte/Imprenta: |
Organic Geochemistry, v. 58, p. 96-106, 2013. |
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Idioma: |
Inglês |
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Conteúdo: |
Terra Preta de Índio (TPI) and Terra Mulata (TM) are anthropogenic soils from the Amazon region and are rich in stable organic matter (OM). The formation and incorporation of OM in these soils has recently been under investigation. Organic geochemical analysis is an appropriated tool for the assessment of the sources of OM. Therefore, we have used the distribution of different acid classes preserved in the free and bound soil fractions of 12 samples from two contrast ing anthropogenic soils (TPI, TM) and an adjacent soil, in order to infer the sources of OM and the magnitude of non-cultural influence on the formation of anthropog enic soils. The major acids in both fractions (i.e. free and bound) were n-saturated, branched and unsaturated alkanoic acids, hydroxyalkanoic acids, bile acids and lignin/suberin derived aromatic acids. In general, the acids in the free and bound fractions appeared to be complementary and together provided valuable information about OM incorporation into anthropogenic soils. Different incorpor ation of x -hydroxyalkanoic acids (C22 ,C24 and C28) and 9(10), 16-ihydroxyhexadecanoic acid, and presence/absence of bile acid showed a distinct genesis for the soils. The influence of modern vegetation was revealed by bound x -hydroxyalkanoic acid (C22, C24 and C28 ) distributions only in the topsoilprofiles of TPI and TM, indicating that organic geochemical analysis is a useful approach in the investigation of ancient human deposits in tropical archaeological soils. MenosTerra Preta de Índio (TPI) and Terra Mulata (TM) are anthropogenic soils from the Amazon region and are rich in stable organic matter (OM). The formation and incorporation of OM in these soils has recently been under investigation. Organic geochemical analysis is an appropriated tool for the assessment of the sources of OM. Therefore, we have used the distribution of different acid classes preserved in the free and bound soil fractions of 12 samples from two contrast ing anthropogenic soils (TPI, TM) and an adjacent soil, in order to infer the sources of OM and the magnitude of non-cultural influence on the formation of anthropog enic soils. The major acids in both fractions (i.e. free and bound) were n-saturated, branched and unsaturated alkanoic acids, hydroxyalkanoic acids, bile acids and lignin/suberin derived aromatic acids. In general, the acids in the free and bound fractions appeared to be complementary and together provided valuable information about OM incorporation into anthropogenic soils. Different incorpor ation of x -hydroxyalkanoic acids (C22 ,C24 and C28) and 9(10), 16-ihydroxyhexadecanoic acid, and presence/absence of bile acid showed a distinct genesis for the soils. The influence of modern vegetation was revealed by bound x -hydroxyalkanoic acid (C22, C24 and C28 ) distributions only in the topsoilprofiles of TPI and TM, indicating that organic geochemical analysis is a useful approach in the investigation of ancient human deposits in tropical archaeologi... Mostrar Tudo |
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Palavras-Chave: |
Antropogenic soil; Organic acid; Solo antropogênico; Terra Mulata; Terra Preta de Índio. |
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Thesagro: |
Solo. |
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Thesaurus NAL: |
Amazonia. |
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Categoria do assunto: |
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P Recursos Naturais, Ciências Ambientais e da Terra |
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Marc: |
LEADER 02227naa a2200241 a 4500
001 1980677
005 2014-02-20
008 2013 bl uuuu u00u1 u #d
100 1 $aTAUBE, P. S.
245 $aOrganic geochemical evaluation of organic acids to assess anthropogenic soil deposits of Central Amazon, Brazil.$h[electronic resource]
260 $c2013
520 $aTerra Preta de Índio (TPI) and Terra Mulata (TM) are anthropogenic soils from the Amazon region and are rich in stable organic matter (OM). The formation and incorporation of OM in these soils has recently been under investigation. Organic geochemical analysis is an appropriated tool for the assessment of the sources of OM. Therefore, we have used the distribution of different acid classes preserved in the free and bound soil fractions of 12 samples from two contrast ing anthropogenic soils (TPI, TM) and an adjacent soil, in order to infer the sources of OM and the magnitude of non-cultural influence on the formation of anthropog enic soils. The major acids in both fractions (i.e. free and bound) were n-saturated, branched and unsaturated alkanoic acids, hydroxyalkanoic acids, bile acids and lignin/suberin derived aromatic acids. In general, the acids in the free and bound fractions appeared to be complementary and together provided valuable information about OM incorporation into anthropogenic soils. Different incorpor ation of x -hydroxyalkanoic acids (C22 ,C24 and C28) and 9(10), 16-ihydroxyhexadecanoic acid, and presence/absence of bile acid showed a distinct genesis for the soils. The influence of modern vegetation was revealed by bound x -hydroxyalkanoic acid (C22, C24 and C28 ) distributions only in the topsoilprofiles of TPI and TM, indicating that organic geochemical analysis is a useful approach in the investigation of ancient human deposits in tropical archaeological soils.
650 $aAmazonia
650 $aSolo
653 $aAntropogenic soil
653 $aOrganic acid
653 $aSolo antropogênico
653 $aTerra Mulata
653 $aTerra Preta de Índio
700 1 $aHANSEL, F. A.
700 1 $aMADUREIRA, L. A. dos S.
700 1 $aTEIXEIRA, W. G.
773 $tOrganic Geochemistry$gv. 58, p. 96-106, 2013.
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Embrapa Florestas (CNPF) |
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