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Registro Completo |
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Biblioteca(s): |
Embrapa Café; Embrapa Recursos Genéticos e Biotecnologia. |
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Data corrente: |
06/03/2017 |
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Data da última atualização: |
29/03/2017 |
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Tipo da produção científica: |
Artigo em Anais de Congresso |
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Autoria: |
ANDRADE, A. C.; SILVA JUNIOR, O. B. da; CARNEIRO, F.; MARRACCINI, P.; GRATTAPAGLIA, D. |
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Afiliação: |
ALAN CARVALHO ANDRADE, SAPC; ORZENIL BONFIM DA SILVA JUNIOR, Cenargen; UFLA; CIRAD; DARIO GRATTAPAGLIA, Cenargen. |
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Título: |
Towards GWAS and Genomic Prediction in Coffee: Development and Validation of a 26K SNP Chip for Coffea Canephora. |
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Ano de publicação: |
2017 |
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Fonte/Imprenta: |
In: PLANT & ANIMAL GENOME, 25., 2017, San Diego. Final program & exhibite guide... San Diego: USDA, 2017. |
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Idioma: |
Inglês |
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Conteúdo: |
Genome-wide SNP genotyping platforms aiming at high-throughput and high-precision genotyping constitute an essential tool to advance breeding by genomic prediction and gene discovery by GWAS. Recent advances in coffee genomics with the sequencing of the Coffea canephora reference genome, has provided the coffee scientific community the necessary resource to develop a SNPs toolbox for genome-wide genotyping. C. canephora, an allogamous diploid species, and one of the parents of the allotetraploid C. arabica, has been an important source of genetic variability for breeding programs of both cultivated species. Highly heterozygous genomes such as C. canephora require a much higher sequence depth to reach acceptable marker call rates and genotype accuracy, when using sequence-based genotyping methods such that their cost effectiveness may not be realized. Here we describe the development and validation of a 26K Axiom SNP array (Affymetrix) whose genome- wide distributed SNP content was discovered from pooled whole-genome resequencing of C. canephora accessions covering most of its known genetic diversity. Besides facilitating low cost, high marker density, polymorphism and speed of data generation, the platform displays high genotype call accuracy and reproducibility. Genotyping validation resulted in 24,073 SNPs (94.6%) successfully converted out of the 25,456 SNPs on the array. 20,982 markers(87.1%) were scored as providing high-resolution genotypic data in a set of 800 individuals of a breeding population in which 19,586 (81.4%) were polymorphic and 1,396 (5.8%) were monomorphic. The remaining set of 3,091 (12.8%) successfully converted markers were of lower accuracy in the studied sample and may require additional cluster analysis to proper biological interpretation, i.e. targeting CNVs. This large validated SNP collection provides a powerful tool for molecular breeding and population genetics investigation within coffee species. Some preliminary results of a GWAS using this genotyping platform will be presented. MenosGenome-wide SNP genotyping platforms aiming at high-throughput and high-precision genotyping constitute an essential tool to advance breeding by genomic prediction and gene discovery by GWAS. Recent advances in coffee genomics with the sequencing of the Coffea canephora reference genome, has provided the coffee scientific community the necessary resource to develop a SNPs toolbox for genome-wide genotyping. C. canephora, an allogamous diploid species, and one of the parents of the allotetraploid C. arabica, has been an important source of genetic variability for breeding programs of both cultivated species. Highly heterozygous genomes such as C. canephora require a much higher sequence depth to reach acceptable marker call rates and genotype accuracy, when using sequence-based genotyping methods such that their cost effectiveness may not be realized. Here we describe the development and validation of a 26K Axiom SNP array (Affymetrix) whose genome- wide distributed SNP content was discovered from pooled whole-genome resequencing of C. canephora accessions covering most of its known genetic diversity. Besides facilitating low cost, high marker density, polymorphism and speed of data generation, the platform displays high genotype call accuracy and reproducibility. Genotyping validation resulted in 24,073 SNPs (94.6%) successfully converted out of the 25,456 SNPs on the array. 20,982 markers(87.1%) were scored as providing high-resolution genotypic data in a set of 800 individ... Mostrar Tudo |
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Palavras-Chave: |
Coffee Berry Borer; Coffee canephora. |
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Thesagro: |
Coffea Canephora. |
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Categoria do assunto: |
-- |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/157203/1/Coffe-genomics.pdf
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Marc: |
LEADER 02724nam a2200193 a 4500
001 2066344
005 2017-03-29
008 2017 bl uuuu u00u1 u #d
100 1 $aANDRADE, A. C.
245 $aTowards GWAS and Genomic Prediction in Coffee$bDevelopment and Validation of a 26K SNP Chip for Coffea Canephora.$h[electronic resource]
260 $aIn: PLANT & ANIMAL GENOME, 25., 2017, San Diego. Final program & exhibite guide... San Diego: USDA$c2017
520 $aGenome-wide SNP genotyping platforms aiming at high-throughput and high-precision genotyping constitute an essential tool to advance breeding by genomic prediction and gene discovery by GWAS. Recent advances in coffee genomics with the sequencing of the Coffea canephora reference genome, has provided the coffee scientific community the necessary resource to develop a SNPs toolbox for genome-wide genotyping. C. canephora, an allogamous diploid species, and one of the parents of the allotetraploid C. arabica, has been an important source of genetic variability for breeding programs of both cultivated species. Highly heterozygous genomes such as C. canephora require a much higher sequence depth to reach acceptable marker call rates and genotype accuracy, when using sequence-based genotyping methods such that their cost effectiveness may not be realized. Here we describe the development and validation of a 26K Axiom SNP array (Affymetrix) whose genome- wide distributed SNP content was discovered from pooled whole-genome resequencing of C. canephora accessions covering most of its known genetic diversity. Besides facilitating low cost, high marker density, polymorphism and speed of data generation, the platform displays high genotype call accuracy and reproducibility. Genotyping validation resulted in 24,073 SNPs (94.6%) successfully converted out of the 25,456 SNPs on the array. 20,982 markers(87.1%) were scored as providing high-resolution genotypic data in a set of 800 individuals of a breeding population in which 19,586 (81.4%) were polymorphic and 1,396 (5.8%) were monomorphic. The remaining set of 3,091 (12.8%) successfully converted markers were of lower accuracy in the studied sample and may require additional cluster analysis to proper biological interpretation, i.e. targeting CNVs. This large validated SNP collection provides a powerful tool for molecular breeding and population genetics investigation within coffee species. Some preliminary results of a GWAS using this genotyping platform will be presented.
650 $aCoffea Canephora
653 $aCoffee Berry Borer
653 $aCoffee canephora
700 1 $aSILVA JUNIOR, O. B. da
700 1 $aCARNEIRO, F.
700 1 $aMARRACCINI, P.
700 1 $aGRATTAPAGLIA, D.
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Registro original: |
Embrapa Café (CNPCa) |
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 | Acesso ao texto completo restrito à biblioteca da Embrapa Florestas. Para informações adicionais entre em contato com cnpf.biblioteca@embrapa.br. |
Registro Completo
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Biblioteca(s): |
Embrapa Florestas. |
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Data corrente: |
13/05/2024 |
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Data da última atualização: |
13/05/2024 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Circulação/Nível: |
A - 4 |
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Autoria: |
DIAS, I. A.; HORTA, R. P.; MATOS, M.; HELM, C. V.; MAGALHAES, W. L. E.; LIMA, E. A. de; SILVA, B. J. G. da; MUNIZ, G. I. B. de; CADEMARTORI, P. H. G. de. |
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Afiliação: |
IVANA AMORIM DIAS, UNIVERSIDADE FEDERAL DO PARANÁ; RAYTA PAIM HORTA, UNIVERSIDADE FEDERAL DO PARANÁ; MAILSON MATOS, UNIVERSIDADE FEDERAL DO PARANÁ; CRISTIANE VIEIRA HELM, CNPF; WASHINGTON LUIZ ESTEVES MAGALHAES, CNPF; EDSON ALVES DE LIMA, CNPF; BRUNO JOSÉ GONÇALVES DA SILVA, UNIVERSIDADE FEDERAL DO PARANÁ; GRACIELA INES BOLZON DE MUNIZ, UNIVERSIDADE FEDERAL DO PARANÁ; PEDRO HENRIQUE GONZALEZ DE CADEMARTORI, UNIVERSIDADE FEDERAL DO PARANÁ. |
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Título: |
Exploring the antioxidant and antimicrobial properties of the water-soluble fraction derived from pyrolytic lignin separation in fast-pyrolysis bio-oil. |
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Ano de publicação: |
2023 |
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Fonte/Imprenta: |
Biomass Conversion and Biorefinery, p. 1-12, 2023. |
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DOI: |
http://dx.doi.org/10.1007/s13399-023-04561-7 |
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Idioma: |
Inglês |
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Notas: |
Online first. |
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Conteúdo: |
Improving key biomass functionalities necessitates effective liquid-liquid fractionation methods for heavy bio-oil. Here, fast-pyrolysis bio-oil derived from eucalypt wood was fractionated in cold water to separate insoluble and water-soluble fractions. We focus on the water-soluble fraction, a promising renewable source of chemicals with potential antioxidant and antimicrobial approaches. Fast-pyrolysis bio-oil was fractionated in three oil-to-water ratios, 1:100, 1:50, and 1:35, separating the pyrolytic lignin and producing water-soluble fractions as byproducts. The water-soluble fractions were analytically investigated through physicochemical properties, chemical composition by chromatography, phenolic content, antioxidant activity, antimicrobial activity, and their storage stability. Higher water content in the pyrolytic lignin separation resulted in higher yield and higher molecular weight compounds concentration in the water-soluble fractions, with the presence of highvalue- added chemicals, such as catechol, vanillin, and levoglucosan. Levoglucosan was the dominant chemical identified in the water-soluble fractions, notably for the 1:50 oil-to-water ratio. These remarkable chemicals and a high phenolic content contribute to both high antioxidant and antimicrobial activities. Despite the low concentration, all water-soluble fractions exhibited intense inhibition of Trametes versicolor and Gloeophyllum trabeum fungi. The fraction 1:50 completely inhibited the fungal activity. Both 1:100 and 1:50 fractions showed antibacterial activity for Escherichia coli and Staphylococcus aureus. Regardless of the oil-to-water ratio, water-soluble fractions exhibited a relative storage chemical stability under accelerated aging conditions for 43 days. Therefore, water-soluble fractions of fast-pyrolysis bio-oil derived from a simple method to separate pyrolytic lignin are functional materials with remarkable antioxidant and antimicrobial properties and, hence, upgrading bio-oil based on their functionalities. MenosImproving key biomass functionalities necessitates effective liquid-liquid fractionation methods for heavy bio-oil. Here, fast-pyrolysis bio-oil derived from eucalypt wood was fractionated in cold water to separate insoluble and water-soluble fractions. We focus on the water-soluble fraction, a promising renewable source of chemicals with potential antioxidant and antimicrobial approaches. Fast-pyrolysis bio-oil was fractionated in three oil-to-water ratios, 1:100, 1:50, and 1:35, separating the pyrolytic lignin and producing water-soluble fractions as byproducts. The water-soluble fractions were analytically investigated through physicochemical properties, chemical composition by chromatography, phenolic content, antioxidant activity, antimicrobial activity, and their storage stability. Higher water content in the pyrolytic lignin separation resulted in higher yield and higher molecular weight compounds concentration in the water-soluble fractions, with the presence of highvalue- added chemicals, such as catechol, vanillin, and levoglucosan. Levoglucosan was the dominant chemical identified in the water-soluble fractions, notably for the 1:50 oil-to-water ratio. These remarkable chemicals and a high phenolic content contribute to both high antioxidant and antimicrobial activities. Despite the low concentration, all water-soluble fractions exhibited intense inhibition of Trametes versicolor and Gloeophyllum trabeum fungi. The fraction 1:50 completely inhibited the fungal act... Mostrar Tudo |
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Palavras-Chave: |
Antimicrobial potential; Aqueous fraction; Levoglucosan; Storage stability. |
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Thesaurus NAL: |
Antioxidant activity; Phenolic compounds. |
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Categoria do assunto: |
K Ciência Florestal e Produtos de Origem Vegetal |
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Marc: |
LEADER 03046naa a2200313 a 4500
001 2164243
005 2024-05-13
008 2023 bl uuuu u00u1 u #d
024 7 $ahttp://dx.doi.org/10.1007/s13399-023-04561-7$2DOI
100 1 $aDIAS, I. A.
245 $aExploring the antioxidant and antimicrobial properties of the water-soluble fraction derived from pyrolytic lignin separation in fast-pyrolysis bio-oil.$h[electronic resource]
260 $c2023
500 $aOnline first.
520 $aImproving key biomass functionalities necessitates effective liquid-liquid fractionation methods for heavy bio-oil. Here, fast-pyrolysis bio-oil derived from eucalypt wood was fractionated in cold water to separate insoluble and water-soluble fractions. We focus on the water-soluble fraction, a promising renewable source of chemicals with potential antioxidant and antimicrobial approaches. Fast-pyrolysis bio-oil was fractionated in three oil-to-water ratios, 1:100, 1:50, and 1:35, separating the pyrolytic lignin and producing water-soluble fractions as byproducts. The water-soluble fractions were analytically investigated through physicochemical properties, chemical composition by chromatography, phenolic content, antioxidant activity, antimicrobial activity, and their storage stability. Higher water content in the pyrolytic lignin separation resulted in higher yield and higher molecular weight compounds concentration in the water-soluble fractions, with the presence of highvalue- added chemicals, such as catechol, vanillin, and levoglucosan. Levoglucosan was the dominant chemical identified in the water-soluble fractions, notably for the 1:50 oil-to-water ratio. These remarkable chemicals and a high phenolic content contribute to both high antioxidant and antimicrobial activities. Despite the low concentration, all water-soluble fractions exhibited intense inhibition of Trametes versicolor and Gloeophyllum trabeum fungi. The fraction 1:50 completely inhibited the fungal activity. Both 1:100 and 1:50 fractions showed antibacterial activity for Escherichia coli and Staphylococcus aureus. Regardless of the oil-to-water ratio, water-soluble fractions exhibited a relative storage chemical stability under accelerated aging conditions for 43 days. Therefore, water-soluble fractions of fast-pyrolysis bio-oil derived from a simple method to separate pyrolytic lignin are functional materials with remarkable antioxidant and antimicrobial properties and, hence, upgrading bio-oil based on their functionalities.
650 $aAntioxidant activity
650 $aPhenolic compounds
653 $aAntimicrobial potential
653 $aAqueous fraction
653 $aLevoglucosan
653 $aStorage stability
700 1 $aHORTA, R. P.
700 1 $aMATOS, M.
700 1 $aHELM, C. V.
700 1 $aMAGALHAES, W. L. E.
700 1 $aLIMA, E. A. de
700 1 $aSILVA, B. J. G. da
700 1 $aMUNIZ, G. I. B. de
700 1 $aCADEMARTORI, P. H. G. de
773 $tBiomass Conversion and Biorefinery, p. 1-12, 2023.
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