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Registro Completo |
Biblioteca(s): |
Embrapa Suínos e Aves. |
Data corrente: |
04/11/2019 |
Data da última atualização: |
04/11/2019 |
Tipo da produção científica: |
Artigo em Periódico Indexado |
Autoria: |
ALMEIDA, O. A. C.; MOREIRA, G. C. M.; REZENDE, F. M.; BOSCHIERO, C.; PEIXOTO, J. de O.; IBELLI, A. M. G.; LEDUR, M. C.; NOVAIS, F. J. de; COUTINHO, L. L. |
Afiliação: |
OCTÁVIO AUGUSTO COSTA ALMEIDA, ESALQ; GABRIEL COSTA MONTEIRO MOREIRA, ESALQ; FERNANDA MARCONDES REZENDE, ESALQ; CLARISSA BOSCHIERO, ESALQ; JANE DE OLIVEIRA PEIXOTO, CNPSA; ADRIANA MERCIA GUARATINI IBELLI, CNPSA; MONICA CORREA LEDUR, CNPSA; FRANCISCO JOSÉ DE NOVAIS, ESALQ; LUIZ LEHMANN COUTINHO, ESALQ. |
Título: |
Identification of selection signatures involved in performance traits in a paternal broiler line. |
Ano de publicação: |
2019 |
Fonte/Imprenta: |
BMC Genomics, v. 20, n. 449, 2019. |
DOI: |
10.1186/s12864-019-5811-1 |
Idioma: |
Inglês |
Conteúdo: |
Abstract: Background: Natural and artificial selection leads to changes in certain regions of the genome resulting in selection signatures that can reveal genes associated with the selected traits. Selection signatures may be identified using different methodologies, of which some are based on detecting contiguous sequences of homozygous identical-bydescent haplotypes, called runs of homozygosity (ROH), or estimating fixation index (FST) of genomic windows that indicates genetic differentiation. This study aimed to identify selection signatures in a paternal broiler TT line at generations 7th and 16th of selection and to investigate the genes annotated in these regions as well as the biological pathways involved. For such purpose, ROH and FST-based analysis were performed using whole genome sequence of twenty-eight chickens from two different generations. Results: ROH analysis identified homozygous regions of short and moderate size. Analysis of ROH patterns revealed regions commonly shared among animals and changes in ROH abundance and size between the two generations. Results also suggest that whole genome sequencing (WGS) outperforms SNPchip data avoiding overestimation of ROH size and underestimation of ROH number; however, sequencing costs can limited the number of animals analyzed. FSTbased analysis revealed genetic differentiation in several genomic windows. Annotation of the consensus regions of ROH and FST windows revealed new and previously identified genes associated with traits of economic interest, such as APOB, IGF1, IGFBP2, POMC, PPARG, and ZNF423. Over-representation analysis of the genes resulted in biological terms of skeletal muscle, matrilin proteins, adipose tissue, hyperglycemia, diabetes, Salmonella infections and tyrosine. Conclusions: Identification of ROH and FST-based analyses revealed selection signatures in TT line and genes that have important role in traits of economic interest. Changes in the genome of the chickens were observed between the 7th and 16th generations showing that ancient and recent selection in TT line may have acted over genomic regions affecting diseases and performance traits. MenosAbstract: Background: Natural and artificial selection leads to changes in certain regions of the genome resulting in selection signatures that can reveal genes associated with the selected traits. Selection signatures may be identified using different methodologies, of which some are based on detecting contiguous sequences of homozygous identical-bydescent haplotypes, called runs of homozygosity (ROH), or estimating fixation index (FST) of genomic windows that indicates genetic differentiation. This study aimed to identify selection signatures in a paternal broiler TT line at generations 7th and 16th of selection and to investigate the genes annotated in these regions as well as the biological pathways involved. For such purpose, ROH and FST-based analysis were performed using whole genome sequence of twenty-eight chickens from two different generations. Results: ROH analysis identified homozygous regions of short and moderate size. Analysis of ROH patterns revealed regions commonly shared among animals and changes in ROH abundance and size between the two generations. Results also suggest that whole genome sequencing (WGS) outperforms SNPchip data avoiding overestimation of ROH size and underestimation of ROH number; however, sequencing costs can limited the number of animals analyzed. FSTbased analysis revealed genetic differentiation in several genomic windows. Annotation of the consensus regions of ROH and FST windows revealed new and previously identified genes associa... Mostrar Tudo |
Palavras-Chave: |
Fixation index; FST; Runs of homozygosity. |
Thesagro: |
Galinha; Genética Molecular; Genoma; Linhagem; Melhoramento Genético Animal; Seleção Genótipa. |
Thesaurus Nal: |
Artificial selection; Chickens; Gallus gallus. |
Categoria do assunto: |
-- |
Marc: |
LEADER 03218naa a2200373 a 4500 001 2113872 005 2019-11-04 008 2019 bl uuuu u00u1 u #d 024 7 $a10.1186/s12864-019-5811-1$2DOI 100 1 $aALMEIDA, O. A. C. 245 $aIdentification of selection signatures involved in performance traits in a paternal broiler line.$h[electronic resource] 260 $c2019 520 $aAbstract: Background: Natural and artificial selection leads to changes in certain regions of the genome resulting in selection signatures that can reveal genes associated with the selected traits. Selection signatures may be identified using different methodologies, of which some are based on detecting contiguous sequences of homozygous identical-bydescent haplotypes, called runs of homozygosity (ROH), or estimating fixation index (FST) of genomic windows that indicates genetic differentiation. This study aimed to identify selection signatures in a paternal broiler TT line at generations 7th and 16th of selection and to investigate the genes annotated in these regions as well as the biological pathways involved. For such purpose, ROH and FST-based analysis were performed using whole genome sequence of twenty-eight chickens from two different generations. Results: ROH analysis identified homozygous regions of short and moderate size. Analysis of ROH patterns revealed regions commonly shared among animals and changes in ROH abundance and size between the two generations. Results also suggest that whole genome sequencing (WGS) outperforms SNPchip data avoiding overestimation of ROH size and underestimation of ROH number; however, sequencing costs can limited the number of animals analyzed. FSTbased analysis revealed genetic differentiation in several genomic windows. Annotation of the consensus regions of ROH and FST windows revealed new and previously identified genes associated with traits of economic interest, such as APOB, IGF1, IGFBP2, POMC, PPARG, and ZNF423. Over-representation analysis of the genes resulted in biological terms of skeletal muscle, matrilin proteins, adipose tissue, hyperglycemia, diabetes, Salmonella infections and tyrosine. Conclusions: Identification of ROH and FST-based analyses revealed selection signatures in TT line and genes that have important role in traits of economic interest. Changes in the genome of the chickens were observed between the 7th and 16th generations showing that ancient and recent selection in TT line may have acted over genomic regions affecting diseases and performance traits. 650 $aArtificial selection 650 $aChickens 650 $aGallus gallus 650 $aGalinha 650 $aGenética Molecular 650 $aGenoma 650 $aLinhagem 650 $aMelhoramento Genético Animal 650 $aSeleção Genótipa 653 $aFixation index 653 $aFST 653 $aRuns of homozygosity 700 1 $aMOREIRA, G. C. M. 700 1 $aREZENDE, F. M. 700 1 $aBOSCHIERO, C. 700 1 $aPEIXOTO, J. de O. 700 1 $aIBELLI, A. M. G. 700 1 $aLEDUR, M. C. 700 1 $aNOVAIS, F. J. de 700 1 $aCOUTINHO, L. L. 773 $tBMC Genomics$gv. 20, n. 449, 2019.
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Embrapa Suínos e Aves (CNPSA) |
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Registro Completo
Biblioteca(s): |
Embrapa Hortaliças. |
Data corrente: |
02/08/2001 |
Data da última atualização: |
02/08/2001 |
Autoria: |
VILLAS BOAS, G. L.; FRANCA, F. H.; MACEDO, N.; MOITA, A. W. |
Afiliação: |
EMBRAPA-CNPH, Brasilia, DF. |
Título: |
Avaliacao da preferencia de Bemisia argentifolii por diferentes especies de plantas. |
Ano de publicação: |
2001 |
Fonte/Imprenta: |
Horticultura Brasileira, Brasilia, v.19, n.2, p.131-134, jul. 2001. |
Idioma: |
Português |
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. |
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. |
Thesaurus NAL: |
Bemisia argentifolii; Brazil; broccoli; cabbage; cassava; corn; dry beans; oviposition; tomatoes; zucchini. |
Categoria do assunto: |
-- |
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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