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 | Acesso ao texto completo restrito à biblioteca da Embrapa Gado de Leite. Para informações adicionais entre em contato com cnpgl.biblioteca@embrapa.br. |
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Registro Completo |
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Biblioteca(s): |
Embrapa Gado de Leite. |
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Data corrente: |
03/05/2024 |
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Data da última atualização: |
03/05/2024 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
VIEIRA, J. I. G.; BRAGA, L. G.; CHU, T. C. S.; FERREIRA, P. H.; GUIMARÃES, S. E. F.; MARTINS, M. F.; PANETTO, J. C. do C.; MACHADO, M. A.; SILVA, D. B. dos S.; BONAFÉ, C. M.; MAGALHÃES, A. F. B.; SILVA, M. V. G. B.; VERARDO, L. L. |
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Afiliação: |
JOÃO INÁCIO GOMES VIEIRA, UNIVERSIDADE FEDERAL DOS VALES DO JEQUITINHONHA E MUCURI; LARISSA GRACIANO BRAGA, UNIVERSIDADE ESTADUAL PAULISTA; TATIANE C. S. CHU, PEAK, URUS GROUP; PABLO HENRIQUE FERREIRA, UNIVERSIDADE FEDERAL DOS VALES DO JEQUITINHONHA E MUCURI; SIMONE ELIZA FACIONI GUIMARÃES, UNIVERSIDADE FEDERAL DE VIÇOSA; MARTA FONSECA MARTINS, CNPGL; JOAO CLAUDIO DO CARMO PANETTO, CNPGL; MARCO ANTONIO MACHADO, CNPGL; DANIELLY BERALDO DOS SANTOS SILVA, UNIVERSIDADE PROF. EDSON ANTÔNIO VELANO; CRISTINA MOREIRA BONAFE, UNIVERSIDADE FEDERAL DOS VALES DO JEQUITINHONHA E MUCURI; ANA FABRÍCIA BRAGA MAGALHÃES, UNIVERSIDADE FEDERAL DOS VALES DO JEQUITINHONHA E MUCURI; MARCOS VINICIUS GUALBERTO B SILVA, CNPGL; LUCAS LIMA VERARDO, UNIVERSIDADE FEDERAL DOS VALES DO JEQUITINHONHA E MUCURI. |
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Título: |
Resequencing of Brazilian locally adapted cattle breeds revealed variants in candidate genes and transcription factors for meat fatty acid profile. |
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Ano de publicação: |
2024 |
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Fonte/Imprenta: |
Journal of Animal Breeding and Genetics, 2024. |
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DOI: |
https://doi.org/10.1111/jbg.12869 |
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Idioma: |
Inglês |
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Notas: |
First online. |
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Conteúdo: |
The beef cattle industry has experienced a shift driven by a market demand for healthier meat, cost efficiency and environmental sustainability in recent years. Consequently, there has been a growing focus on the fatty acids content and functions of meat in cattle breeding programmes. Besides, a deeper understanding of the biological mechanisms influencing the expression of different phenotypes related to fatty acid profiles is crucial. In this study, we aimed to identify Single-Nucleotide Variants (SNV) and Insertion/Deletion (InDels) DNA variants in candidate genes related to fatty acid profiles described in genomic, transcriptomic and proteomic studies conducted in beef cattle breeds. Utilizing whole-genome re-sequencing data from Brazilian locally adapted bovine breeds, namely Caracu and Pantaneiro, we identified SNVs and InDels associated with 23,947 genes. From these, we identified 318 candidate genes related to fatty acid profiles that contain variants. Subsequently, we select only genes with SNVs and InDels in their promoter, 5' UTR and coding region. Through the gene-biological process network, approximately 19 genes were highlighted. Furthermore, considering the studied trait and a literature review, we selected the main transcription factors (TF). Functional analysis via gene-TF network allowed us to identify the 30 most likely candidate genes for meat fatty acid profile in cattle. LIPE, MFSD2A and SREBF1 genes were highlighted in networks due to their biological importance. Further dissection of these genes revealed 15 new variants found in promoter regions of Caracu and Pantaneiro sequences. The gene networks facilitated a better functional understanding of genes and TF, enabling the identification of variants potentially related to the expression of candidate genes for meat fatty acid profiles in cattle. MenosThe beef cattle industry has experienced a shift driven by a market demand for healthier meat, cost efficiency and environmental sustainability in recent years. Consequently, there has been a growing focus on the fatty acids content and functions of meat in cattle breeding programmes. Besides, a deeper understanding of the biological mechanisms influencing the expression of different phenotypes related to fatty acid profiles is crucial. In this study, we aimed to identify Single-Nucleotide Variants (SNV) and Insertion/Deletion (InDels) DNA variants in candidate genes related to fatty acid profiles described in genomic, transcriptomic and proteomic studies conducted in beef cattle breeds. Utilizing whole-genome re-sequencing data from Brazilian locally adapted bovine breeds, namely Caracu and Pantaneiro, we identified SNVs and InDels associated with 23,947 genes. From these, we identified 318 candidate genes related to fatty acid profiles that contain variants. Subsequently, we select only genes with SNVs and InDels in their promoter, 5' UTR and coding region. Through the gene-biological process network, approximately 19 genes were highlighted. Furthermore, considering the studied trait and a literature review, we selected the main transcription factors (TF). Functional analysis via gene-TF network allowed us to identify the 30 most likely candidate genes for meat fatty acid profile in cattle. LIPE, MFSD2A and SREBF1 genes were highlighted in networks due to their biological ... Mostrar Tudo |
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Palavras-Chave: |
Pós-ômica; Sequenciamento genômico. |
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Thesagro: |
Bovino; Genética Animal; Genoma. |
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Thesaurus Nal: |
Genomics. |
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Categoria do assunto: |
L Ciência Animal e Produtos de Origem Animal |
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Marc: |
LEADER 02947naa a2200361 a 4500
001 2164072
005 2024-05-03
008 2024 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.1111/jbg.12869$2DOI
100 1 $aVIEIRA, J. I. G.
245 $aResequencing of Brazilian locally adapted cattle breeds revealed variants in candidate genes and transcription factors for meat fatty acid profile.$h[electronic resource]
260 $c2024
500 $aFirst online.
520 $aThe beef cattle industry has experienced a shift driven by a market demand for healthier meat, cost efficiency and environmental sustainability in recent years. Consequently, there has been a growing focus on the fatty acids content and functions of meat in cattle breeding programmes. Besides, a deeper understanding of the biological mechanisms influencing the expression of different phenotypes related to fatty acid profiles is crucial. In this study, we aimed to identify Single-Nucleotide Variants (SNV) and Insertion/Deletion (InDels) DNA variants in candidate genes related to fatty acid profiles described in genomic, transcriptomic and proteomic studies conducted in beef cattle breeds. Utilizing whole-genome re-sequencing data from Brazilian locally adapted bovine breeds, namely Caracu and Pantaneiro, we identified SNVs and InDels associated with 23,947 genes. From these, we identified 318 candidate genes related to fatty acid profiles that contain variants. Subsequently, we select only genes with SNVs and InDels in their promoter, 5' UTR and coding region. Through the gene-biological process network, approximately 19 genes were highlighted. Furthermore, considering the studied trait and a literature review, we selected the main transcription factors (TF). Functional analysis via gene-TF network allowed us to identify the 30 most likely candidate genes for meat fatty acid profile in cattle. LIPE, MFSD2A and SREBF1 genes were highlighted in networks due to their biological importance. Further dissection of these genes revealed 15 new variants found in promoter regions of Caracu and Pantaneiro sequences. The gene networks facilitated a better functional understanding of genes and TF, enabling the identification of variants potentially related to the expression of candidate genes for meat fatty acid profiles in cattle.
650 $aGenomics
650 $aBovino
650 $aGenética Animal
650 $aGenoma
653 $aPós-ômica
653 $aSequenciamento genômico
700 1 $aBRAGA, L. G.
700 1 $aCHU, T. C. S.
700 1 $aFERREIRA, P. H.
700 1 $aGUIMARÃES, S. E. F.
700 1 $aMARTINS, M. F.
700 1 $aPANETTO, J. C. do C.
700 1 $aMACHADO, M. A.
700 1 $aSILVA, D. B. dos S.
700 1 $aBONAFÉ, C. M.
700 1 $aMAGALHÃES, A. F. B.
700 1 $aSILVA, M. V. G. B.
700 1 $aVERARDO, L. L.
773 $tJournal of Animal Breeding and Genetics, 2024.
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Registro original: |
Embrapa Gado de Leite (CNPGL) |
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Biblioteca |
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Origem |
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Cutter |
Registro |
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URL |
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Registro Completo
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Biblioteca(s): |
Embrapa Gado de Corte. |
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Data corrente: |
27/02/2014 |
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Data da última atualização: |
21/02/2018 |
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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: |
SILVA, G. T.; SILVA, C. B. C.; JANK, L.; SOUZA, A. P. |
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Afiliação: |
GUILHERME TOLEDO-SILVA, Molecular Biology Center and Genetic Engineering (CBMEG), University of Campinas (UNICAMP), Campinas, São Paulo, Brazil.; CLAUDIO BENICIO CARDOSO-SILVA, Molecular Biology Center and Genetic Engineering (CBMEG), University of Campinas (UNICAMP), Campinas, São Paulo, Brazil; LIANA JANK, CNPGC; ANETE PEREIRA SOUZA, Molecular Biology Center and Genetic Engineering (CBMEG), University of Campinas (UNICAMP), Campinas, São Paulo, Brazil; Department of Plant Biology, Biology Institute, University of Campinas (UNICAMP), Campinas, São Paulo, BraziL. |
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Título: |
De novo transcriptome assembly for the tropical grass Panicum maximum Jacq. |
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Ano de publicação: |
2013 |
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Fonte/Imprenta: |
PLOS ONE, v. 8, n. 7, p. 1-10, july 2013 |
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Idioma: |
Inglês |
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Conteúdo: |
Guinea grass (Panicum maximum Jacq.) is a tropical African grass often used to feed beef cattle, which is an important economic activity in Brazil. Brazil is the leader in global meat exportation because of its exclusively pasture-raised bovine herds. Guinea grass also has potential uses in bioenergy production due to its elevated biomass generation through the C4 photosynthesis pathway. We generated approximately 13 Gb of data from Illumina sequencing of P. maximum leaves. Four different genotypes were sequenced, and the combined reads were assembled de novo into 38,192 unigenes and annotated; approximately 63% of the unigenes had homology to other proteins in the NCBI non-redundant protein database. Functional classification through COG (Clusters of Orthologous Groups), GO (Gene Ontology) and KEGG (Kyoto Encyclopedia of Genes and Genomes) analyses showed that the unigenes from Guinea grass leaves are involved in a wide range of biological processes and metabolic pathways, including C4 photosynthesis and lignocellulose generation, which are important for cattle grazing and bioenergy production. The most abundant transcripts were involved in carbon fixation, photosynthesis, RNA translation and heavy metal cellular homeostasis. Finally, we identified a number of potential molecular markers, including 5,035 microsatellites (SSRs) and 346,456 single nucleotide polymorphisms (SNPs). To the best of our knowledge, this is the first study to characterize the complete leaf transcriptome of P. maximum using highthroughput sequencing. The biological information provided here will aid in gene expression studies and marker-assisted selection-based breeding research in tropical grasses. MenosGuinea grass (Panicum maximum Jacq.) is a tropical African grass often used to feed beef cattle, which is an important economic activity in Brazil. Brazil is the leader in global meat exportation because of its exclusively pasture-raised bovine herds. Guinea grass also has potential uses in bioenergy production due to its elevated biomass generation through the C4 photosynthesis pathway. We generated approximately 13 Gb of data from Illumina sequencing of P. maximum leaves. Four different genotypes were sequenced, and the combined reads were assembled de novo into 38,192 unigenes and annotated; approximately 63% of the unigenes had homology to other proteins in the NCBI non-redundant protein database. Functional classification through COG (Clusters of Orthologous Groups), GO (Gene Ontology) and KEGG (Kyoto Encyclopedia of Genes and Genomes) analyses showed that the unigenes from Guinea grass leaves are involved in a wide range of biological processes and metabolic pathways, including C4 photosynthesis and lignocellulose generation, which are important for cattle grazing and bioenergy production. The most abundant transcripts were involved in carbon fixation, photosynthesis, RNA translation and heavy metal cellular homeostasis. Finally, we identified a number of potential molecular markers, including 5,035 microsatellites (SSRs) and 346,456 single nucleotide polymorphisms (SNPs). To the best of our knowledge, this is the first study to characterize the complete leaf transcrip... Mostrar Tudo |
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Thesagro: |
Alimento animal; Carne; Graminea tropical; Panicum maximum. |
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Thesaurus NAL: |
Beef cattle; Megathyrsus maximus. |
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Categoria do assunto: |
-- |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/98451/1/deb-pone.0070781-1..10-fetchObject.action.pdf
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Marc: |
LEADER 02333naa a2200229 a 4500
001 1981465
005 2018-02-21
008 2013 bl uuuu u00u1 u #d
100 1 $aSILVA, G. T.
245 $aDe novo transcriptome assembly for the tropical grass Panicum maximum Jacq.$h[electronic resource]
260 $c2013
520 $aGuinea grass (Panicum maximum Jacq.) is a tropical African grass often used to feed beef cattle, which is an important economic activity in Brazil. Brazil is the leader in global meat exportation because of its exclusively pasture-raised bovine herds. Guinea grass also has potential uses in bioenergy production due to its elevated biomass generation through the C4 photosynthesis pathway. We generated approximately 13 Gb of data from Illumina sequencing of P. maximum leaves. Four different genotypes were sequenced, and the combined reads were assembled de novo into 38,192 unigenes and annotated; approximately 63% of the unigenes had homology to other proteins in the NCBI non-redundant protein database. Functional classification through COG (Clusters of Orthologous Groups), GO (Gene Ontology) and KEGG (Kyoto Encyclopedia of Genes and Genomes) analyses showed that the unigenes from Guinea grass leaves are involved in a wide range of biological processes and metabolic pathways, including C4 photosynthesis and lignocellulose generation, which are important for cattle grazing and bioenergy production. The most abundant transcripts were involved in carbon fixation, photosynthesis, RNA translation and heavy metal cellular homeostasis. Finally, we identified a number of potential molecular markers, including 5,035 microsatellites (SSRs) and 346,456 single nucleotide polymorphisms (SNPs). To the best of our knowledge, this is the first study to characterize the complete leaf transcriptome of P. maximum using highthroughput sequencing. The biological information provided here will aid in gene expression studies and marker-assisted selection-based breeding research in tropical grasses.
650 $aBeef cattle
650 $aMegathyrsus maximus
650 $aAlimento animal
650 $aCarne
650 $aGraminea tropical
650 $aPanicum maximum
700 1 $aSILVA, C. B. C.
700 1 $aJANK, L.
700 1 $aSOUZA, A. P.
773 $tPLOS ONE$gv. 8, n. 7, p. 1-10, july 2013
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Embrapa Gado de Corte (CNPGC) |
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