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Registro Completo |
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Biblioteca(s): |
Embrapa Suínos e Aves. |
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Data corrente: |
03/08/2021 |
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Data da última atualização: |
03/08/2021 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
FERNANDES, A. C.; SILVA, V. H. da; GOES, C. P.; MOREIRA, G. C. M.; GODOY, T. F.; IBELLI, A. M. G.; PEIXOTO, J. de O.; CANTAO, M. E.; LEDUR, M. C.; REZENDE, F. M. de; COUTINHO, L. L. |
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Afiliação: |
ANNA CAROLINA FERNANDES, ESALQ; VINICIUS HENRIQUE DA SILVA, ESALQ; CAROLINA PURCELL GOES, ESALQ; GABRIEL COSTA MONTEIRO MOREIRA, University of Liège; THAIS FERNANDA GODOY, ESALQ; ADRIANA MERCIA GUARATINI IBELLI, CNPSA; JANE DE OLIVEIRA PEIXOTO, CNPSA; MAURICIO EGIDIO CANTAO, CNPSA; MONICA CORREA LEDUR, CNPSA; FERNANDA MARCONDES REZENDE, University of Florida; LUIZ LEHMANN COUTINHO, ESALQ. |
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Título: |
Genome-wide detection of CNVs and their association with performance traits in broilers. |
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Ano de publicação: |
2021 |
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Fonte/Imprenta: |
BMC Genomics, v. 22, n. 354, 2021. |
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DOI: |
https://doi.org/10.1186/s12864-021-07676-1 |
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Idioma: |
Inglês |
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Conteúdo: |
Abstract Background: Copy number variations (CNVs) are a major type of structural genomic variants that underlie genetic architecture and phenotypic variation of complex traits, not only in humans, but also in livestock animals. We identified CNVs along the chicken genome and analyzed their association with performance traits. Genome-wide CNVs were inferred from Affymetrix® high density SNP-chip data for a broiler population. CNVs were concatenated into segments and association analyses were performed with linear mixed models considering a genomic relationship matrix, for birth weight, body weight at 21, 35, 41 and 42 days, feed intake from 35 to 41 days, feed conversion ratio from 35 to 41 days and, body weight gain from 35 to 41 days of age. Results: We identified 23,214 autosomal CNVs, merged into 5042 distinct CNV regions (CNVRs), covering 12.84% of the chicken autosomal genome. One significant CNV segment was associated with BWG on GGA3 (q-value = 0.00443); one significant CNV segment was associated with BW35 (q-value = 0.00571), BW41 (q-value = 0.00180) and BW42 (q-value = 0.00130) on GGA3, and one significant CNV segment was associated with BW on GGA5 (q-value = 0.00432). All significant CNV segments were verified by qPCR, and a validation rate of 92.59% was observed. These CNV segments are located nearby genes, such as KCNJ11, MyoD1 and SOX6, known to underlie growth and development. Moreover, gene-set analyses revealed terms linked with muscle physiology, cellular processes regulation and potassium channels. Conclusions: Overall, this CNV-based GWAS study unravels potential candidate genes that may regulate performance traits in chickens. Our findings provide a foundation for future functional studies on the role of specific genes in regulating performance in chickens. Keywords: GWAS, Performance, CNVs, QTLs, qPCR MenosAbstract Background: Copy number variations (CNVs) are a major type of structural genomic variants that underlie genetic architecture and phenotypic variation of complex traits, not only in humans, but also in livestock animals. We identified CNVs along the chicken genome and analyzed their association with performance traits. Genome-wide CNVs were inferred from Affymetrix® high density SNP-chip data for a broiler population. CNVs were concatenated into segments and association analyses were performed with linear mixed models considering a genomic relationship matrix, for birth weight, body weight at 21, 35, 41 and 42 days, feed intake from 35 to 41 days, feed conversion ratio from 35 to 41 days and, body weight gain from 35 to 41 days of age. Results: We identified 23,214 autosomal CNVs, merged into 5042 distinct CNV regions (CNVRs), covering 12.84% of the chicken autosomal genome. One significant CNV segment was associated with BWG on GGA3 (q-value = 0.00443); one significant CNV segment was associated with BW35 (q-value = 0.00571), BW41 (q-value = 0.00180) and BW42 (q-value = 0.00130) on GGA3, and one significant CNV segment was associated with BW on GGA5 (q-value = 0.00432). All significant CNV segments were verified by qPCR, and a validation rate of 92.59% was observed. These CNV segments are located nearby genes, such as KCNJ11, MyoD1 and SOX6, known to underlie growth and development. Moreover, gene-set analyses revealed terms linked with muscle physiology, cellular p... Mostrar Tudo |
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Palavras-Chave: |
CNVs; Copy number variations; Desempenho zootécnico; GWAS; QPCR; QTLs. |
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Thesagro: |
Gallus Domesticus; Genética Animal; Performance. |
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Thesaurus Nal: |
Animal genetics; Animal performance; Gallus gallus; Genome-wide association study; Quantitative polymerase chain reaction; Quantitative trait loci. |
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Categoria do assunto: |
-- |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/224781/1/final9547.pdf
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Marc: |
LEADER 03101naa a2200433 a 4500
001 2133197
005 2021-08-03
008 2021 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.1186/s12864-021-07676-1$2DOI
100 1 $aFERNANDES, A. C.
245 $aGenome-wide detection of CNVs and their association with performance traits in broilers.$h[electronic resource]
260 $c2021
520 $aAbstract Background: Copy number variations (CNVs) are a major type of structural genomic variants that underlie genetic architecture and phenotypic variation of complex traits, not only in humans, but also in livestock animals. We identified CNVs along the chicken genome and analyzed their association with performance traits. Genome-wide CNVs were inferred from Affymetrix® high density SNP-chip data for a broiler population. CNVs were concatenated into segments and association analyses were performed with linear mixed models considering a genomic relationship matrix, for birth weight, body weight at 21, 35, 41 and 42 days, feed intake from 35 to 41 days, feed conversion ratio from 35 to 41 days and, body weight gain from 35 to 41 days of age. Results: We identified 23,214 autosomal CNVs, merged into 5042 distinct CNV regions (CNVRs), covering 12.84% of the chicken autosomal genome. One significant CNV segment was associated with BWG on GGA3 (q-value = 0.00443); one significant CNV segment was associated with BW35 (q-value = 0.00571), BW41 (q-value = 0.00180) and BW42 (q-value = 0.00130) on GGA3, and one significant CNV segment was associated with BW on GGA5 (q-value = 0.00432). All significant CNV segments were verified by qPCR, and a validation rate of 92.59% was observed. These CNV segments are located nearby genes, such as KCNJ11, MyoD1 and SOX6, known to underlie growth and development. Moreover, gene-set analyses revealed terms linked with muscle physiology, cellular processes regulation and potassium channels. Conclusions: Overall, this CNV-based GWAS study unravels potential candidate genes that may regulate performance traits in chickens. Our findings provide a foundation for future functional studies on the role of specific genes in regulating performance in chickens. Keywords: GWAS, Performance, CNVs, QTLs, qPCR
650 $aAnimal genetics
650 $aAnimal performance
650 $aGallus gallus
650 $aGenome-wide association study
650 $aQuantitative polymerase chain reaction
650 $aQuantitative trait loci
650 $aGallus Domesticus
650 $aGenética Animal
650 $aPerformance
653 $aCNVs
653 $aCopy number variations
653 $aDesempenho zootécnico
653 $aGWAS
653 $aQPCR
653 $aQTLs
700 1 $aSILVA, V. H. da
700 1 $aGOES, C. P.
700 1 $aMOREIRA, G. C. M.
700 1 $aGODOY, T. F.
700 1 $aIBELLI, A. M. G.
700 1 $aPEIXOTO, J. de O.
700 1 $aCANTAO, M. E.
700 1 $aLEDUR, M. C.
700 1 $aREZENDE, F. M. de
700 1 $aCOUTINHO, L. L.
773 $tBMC Genomics$gv. 22, n. 354, 2021.
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Registro original: |
Embrapa Suínos e Aves (CNPSA) |
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| Registros recuperados : 246 | |
| 22. |  | GRUPIONI, N. V.; VENTURINI, G. C.; IBELLI, A. M. G.; PEIXOTO, J. de O.; LEDUR, M. C.; MUNARI, D. P. Association of the Runt-related transcription factor 2 (RUNX2) gene with bone integrity traits in a paternal broiler line. In: INTERNATIONAL PLANT & ANIMAL GENOME, 22., 2014, San Diego, CA. Abstracts? San Diego, 2014. P642.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Suínos e Aves. |
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| 23. | | GOLDONI, I.; IBELLI, A. M. G.; PEIXOTO, J. de O.; HUL, L. M.; CANTAO, M. E.; LEDUR, M. C. Análise comparativa de transcriptoma de frangos normais e afetados com necrose da cabeça do fêmur. In: ENCONTRO DE GENÉTICA DO NORDESTE, 23., 2021, Petrolina. Da produção de alimentos à saúde única: anais. Natal: UFRN: Sociedade Brasileira de Genética Regional Nordeste, 2021. Evento online.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Suínos e Aves. |
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| 24. | | SOUZA, J. R. T. de; IBELLI, A. M. G.; NOGUEIRA, A. R. de A.; REGITANO, L. C. de A. Avaliação de métodos alternativos para transporte e para armazenamento de tecidos e de amostras de RNA. In: SIMPÓSIO DE INICIAÇÃO CIENTÍFICA DA EMBRAPA PECUÁRIA SUDESTE, 2., 2007, São Carlos, SP. Anais... São Carlos: Embrapa Pecuária Sudeste, 2007. (Embrapa Pecuária Sudeste. Documentos, 76).| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Pecuária Sudeste. |
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| 27. | | MEZZARI, M. P.; SILVA, M. L. B. da; VIANCELLI, A.; IBELLI, A. M. G.; KUNZ, A.; SOARES, H. M. Bacteria-microalgae interactions during nitrification/denitrification processes in a photobioreactor treating swine wastewater. In: SIMPÓSIO INTERNACIONAL SOBRE GERENCIAMENTO DE RESÍDUOS AGROPECUÁRIOS E AGROINDUSTRIAIS, 3., 2013, São Pedro, SP. Anais... São Pedro, SP: SBERA, 2013.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Suínos e Aves. |
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| 28. | | MEZZARI, M. P.; SILVA, M. L. B. da; VIANCELLI, A.; IBELLI, A. M. G.; KUNZ, A.; SOARES, H. M. Ammonia removal from swine wastewater by simultaneous nitrification-denitrification processes within a photobioreactor. In: RAMIRAN INTERNATIONAL CONFERENCE, 15., 2013, Versailles. [Anais...] Versailles: RAMIRAN, 2013. 1 pen drive.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Suínos e Aves. |
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| 31. | | SAVOLDI, I. R.; PETRY, B.; CARMO, K. B. do; IBELLI, A. M. G.; PEIXOTO, J. de O.; LEDUR, M. C. Expressão do gene PTHLH em frangos de corte normais e afetados pela necrose da cabeça do fêmur. In: JORNADA DE INICIAÇÃO CIENTÍFICA, 10., 2016, Concórdia. Anais... Concórdia: Embrapa Suínos e Aves: UNC, 2017. p. 13-14. JINC.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Suínos e Aves. |
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| 34. | | FRIGO, A.; SAVOLDI, I. R.; IBELLI, A. M. G.; PEIXOTO, J. de O.; CANTAO, M. E.; LEDUR, M. C. Identificação de SNPs nos genes MYH2 e CLIC4 associados à hérnia umbilical em suínos. In: JORNADA DE INICIAÇÃO CIENTÍFICA, 13., 2019, Concórdia. Anais... Concórdia: Embrapa Suínos e Aves: UNC, 2019. p. 32-33. JINC 2019.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Suínos e Aves. |
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| 35. | | VENDRUSCOLO, A.; SALMÓRIA, L. A.; TAVERNARI, F. de C.; IBELLI, A. M. G.; PEIXOTO, J. de O.; LEDUR, M. C. Perfil de expressão dos genes FGF1 e FGFR3 no rim de poedeiras submetidas a dietas com diferentes níveis de cálcio e fósforo. In: JORNADA DE INICIAÇÃO CIENTÍFICA, 15., 2021, Concórdia. Anais... Concórdia: Embrapa Suínos e Aves: UNC, 2021. p. 30-31.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Suínos e Aves. |
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| 37. | | KOWACIC, R. da C.; SAVOLDI, I. R.; IBELLI, A. M. G.; PALUDO, E.; PEIXOTO, J. de O.; LEDUR, M. C. Padronização da técnica de high resolution melting para detecção de um SNP no gene da calmodulina em galinhas. In: JORNADA DE INICIAÇÃO CIENTÍFICA (JINC), 9., 2015, Concórdia. Anais... Brasília: Embrapa, 2015. p. 135-136.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Suínos e Aves. |
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| 38. | | PETRY, B.; IBELLI, A. M. G.; PEIXOTO, J. de O.; ZANELLA, R.; FIGUEIREDO, E. A. P. de; LEDUR, M. C. Padronização de um teste de diagnóstico molecular utilizando sondas Taqman® para a detecção do gene do Halotano em suínos. In: JORNADA INTEGRADA EM BIOLOGIA, 1, 2014, Joaçaba. Anais... Joaçaba: Unoesc, 2014.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Suínos e Aves. |
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| Registros recuperados : 246 | |
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| Nenhum registro encontrado para a expressão de busca informada. |
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