| |
|
|
|
Registro Completo |
|
Biblioteca(s): |
Embrapa Café. |
|
Data corrente: |
08/12/2023 |
|
Data da última atualização: |
08/12/2023 |
|
Tipo da produção científica: |
Artigo em Periódico Indexado |
|
Autoria: |
ADUNOLA, P.; FERRÃO, M. A. G.; FERRÃO, R. G.; FONSECA, A. F. A. da; VOLPI, P. S.; COMÉRIO, M.; VERDIN FILHO, A. C.; MUNOZ, P. R.; FERRÃO, L. F. V. |
|
Afiliação: |
PAUL ADUNOLA, UNIVERSITY OF FLORIDA; MARIA AMÉLIA G FERRÃO, CNPCa; ROMÁRIO G FERRÃO, INSTITUTO CAPIXABA DE PESQUISA, ASSISTÊNCIA TÉCNICA E EXTENSÃO RURAL; AYMBIRE F A DA FONSECA, INSTITUTO CAPIXABA DE PESQUISA, ASSISTÊNCIA TÉCNICA E EXTENSÃO RURAL; PAULO S VOLPI, INSTITUTO CAPIXABA DE PESQUISA, ASSISTÊNCIA TÉCNICA E EXTENSÃO RURAL; MARCONE COMÉRIO, INSTITUTO CAPIXABA DE PESQUISA, ASSISTÊNCIA TÉCNICA E EXTENSÃO RURAL; ABRAÃO C VERDIN FILHO, INSTITUTO CAPIXABA DE PESQUISA, ASSISTÊNCIA TÉCNICA E EXTENSÃO RURAL; PATRICIO R MUNOZ, UNIVERSITY OF FLORIDA; LUÍS FELIPE V FERRÃO, UNIVERSITY OF FLORIDA. |
|
Título: |
Genomic selection for genotype performance and environmental stability in Coffea canéfora. |
|
Ano de publicação: |
2023 |
|
Fonte/Imprenta: |
G3: Genes, Genomes, Genetics, v. 13, n. 6, p. 1-13, 2023. |
|
DOI: |
https://doi.org/10.1093/g3journal/jkad062 |
|
Idioma: |
Inglês |
|
Conteúdo: |
Coffee is one of the most important beverages and trade products in the world. Among the multiple research initiatives focused on coffee sustainability, plant breeding provides the best means to increase phenotypic performance and release cultivars that could meet market demands. Since coffee is well adapted to a diversity of tropical environments, an important question for those confronting the problem of evaluating phenotypic performance is the relevance of genotype-by-environment interaction. As a perennial crop with a long juvenile phase, coffee is subjected to significant temporal and spatial variations. Such facts not only hinder the selection of promising materials but also cause a majority of complaints among growers. In this study, we hypothesized that trait stability in coffee is genetically controlled and therefore is predictable using molecular information. To test it, we used genome-based methods to predict stability metrics computed with the primary goal of selecting coffee genotypes that combine high phenotypic performance and stability for target environments. Using 2 populations of Coffea canephora, evaluated across multiple years and locations, our contribution is 3-fold: (1) first, we demonstrated that the number of harvest evaluations may be reduced leading to accelerated implementation of molecular breeding; (2) we showed that stability metrics are predictable; and finally, (3) both stable and high-performance genotypes can be simultaneously predicted and selected. While this research was carried out on representative environments for coffee production with substantial crossover in genotypic ranking, we anticipate that genomic prediction can be an efficient tool to select coffee genotypes that combine high performance and stability across years and the target locations here evaluated. MenosCoffee is one of the most important beverages and trade products in the world. Among the multiple research initiatives focused on coffee sustainability, plant breeding provides the best means to increase phenotypic performance and release cultivars that could meet market demands. Since coffee is well adapted to a diversity of tropical environments, an important question for those confronting the problem of evaluating phenotypic performance is the relevance of genotype-by-environment interaction. As a perennial crop with a long juvenile phase, coffee is subjected to significant temporal and spatial variations. Such facts not only hinder the selection of promising materials but also cause a majority of complaints among growers. In this study, we hypothesized that trait stability in coffee is genetically controlled and therefore is predictable using molecular information. To test it, we used genome-based methods to predict stability metrics computed with the primary goal of selecting coffee genotypes that combine high phenotypic performance and stability for target environments. Using 2 populations of Coffea canephora, evaluated across multiple years and locations, our contribution is 3-fold: (1) first, we demonstrated that the number of harvest evaluations may be reduced leading to accelerated implementation of molecular breeding; (2) we showed that stability metrics are predictable; and finally, (3) both stable and high-performance genotypes can be simultaneously predicted an... Mostrar Tudo |
|
Thesagro: |
Coffea Canephora. |
|
Thesaurus Nal: |
Genomics; Genotype; Plant breeding; Prediction. |
|
Categoria do assunto: |
-- |
|
URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/doc/1159395/1/Genomic-selection-for-genotype.pdf
|
|
Marc: |
LEADER 02692naa a2200289 a 4500
001 2159395
005 2023-12-08
008 2023 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.1093/g3journal/jkad062$2DOI
100 1 $aADUNOLA, P.
245 $aGenomic selection for genotype performance and environmental stability in Coffea canéfora.$h[electronic resource]
260 $c2023
520 $aCoffee is one of the most important beverages and trade products in the world. Among the multiple research initiatives focused on coffee sustainability, plant breeding provides the best means to increase phenotypic performance and release cultivars that could meet market demands. Since coffee is well adapted to a diversity of tropical environments, an important question for those confronting the problem of evaluating phenotypic performance is the relevance of genotype-by-environment interaction. As a perennial crop with a long juvenile phase, coffee is subjected to significant temporal and spatial variations. Such facts not only hinder the selection of promising materials but also cause a majority of complaints among growers. In this study, we hypothesized that trait stability in coffee is genetically controlled and therefore is predictable using molecular information. To test it, we used genome-based methods to predict stability metrics computed with the primary goal of selecting coffee genotypes that combine high phenotypic performance and stability for target environments. Using 2 populations of Coffea canephora, evaluated across multiple years and locations, our contribution is 3-fold: (1) first, we demonstrated that the number of harvest evaluations may be reduced leading to accelerated implementation of molecular breeding; (2) we showed that stability metrics are predictable; and finally, (3) both stable and high-performance genotypes can be simultaneously predicted and selected. While this research was carried out on representative environments for coffee production with substantial crossover in genotypic ranking, we anticipate that genomic prediction can be an efficient tool to select coffee genotypes that combine high performance and stability across years and the target locations here evaluated.
650 $aGenomics
650 $aGenotype
650 $aPlant breeding
650 $aPrediction
650 $aCoffea Canephora
700 1 $aFERRÃO, M. A. G.
700 1 $aFERRÃO, R. G.
700 1 $aFONSECA, A. F. A. da
700 1 $aVOLPI, P. S.
700 1 $aCOMÉRIO, M.
700 1 $aVERDIN FILHO, A. C.
700 1 $aMUNOZ, P. R.
700 1 $aFERRÃO, L. F. V.
773 $tG3: Genes, Genomes, Genetics$gv. 13, n. 6, p. 1-13, 2023.
Download
Esconder MarcMostrar Marc Completo |
|
Registro original: |
Embrapa Café (CNPCa) |
|
|
Biblioteca |
ID |
Origem |
Tipo/Formato |
Classificação |
Cutter |
Registro |
Volume |
Status |
URL |
Voltar
|
|
|
Registro Completo
|
Biblioteca(s): |
Embrapa Café. |
|
Data corrente: |
06/05/2019 |
|
Data da última atualização: |
06/05/2019 |
|
Tipo da produção científica: |
Artigo em Periódico Indexado |
|
Autoria: |
SANTOS, T. B. dos; SOARES, J. D. M.; LIMA, J. E.; SILVA, J. C.; IVAMOTO, S. T.; BABA, V. Y.; SOUZA, S. G. H.; LORENZETTI, A. P. R.; PASCHOAL, A. R.; MEDA, A. R.; NISHIYAMA JÚNIOR, M. Y.; OLIVEIRA, U. C. de; MOKOCHINSKI, J. B.; GUYOT, R.; JUNQUEIRA-DE-AZEVEDO, I. L. M.; FIGUEIR, A. V. O.; MAZZAFERA, P.; R. JÚNIO, O.; VIEIRA, L. G. E.; PEREIRA, L. F. P.; DOMINGUES, D. S. |
|
Afiliação: |
Tiago Benedito dos Santos, Universidade do Oeste Paulista; João D. M. Soares, Laboratório de Biotecnologia Vegetal, Instituto Agronômico do Paraná - IAPAR; Joni E. Lima, Departamento de Botânica/Instituto de Ciências Biológicas/Universidade Federal de Minas Gerais - UFMG; Juliana C. Silva, Programa de pós-graduação em Bioinformática/Universidade Tecnológica Federal do Paraná; Suzana T. Ivamoto, Departamento de Botânica/Instituto de Biociências de Rio Claro/Universidade Estadual Paulista; Viviane Y. Baba, Laboratório de Biotecnologia Vegetal, Instituto Agronômico do Paraná - IAPAR; Silvia G. H. Souza, Laboratório de Biologia Molecular/Universidade Paranaense; Alan P. R. Lorenzetti, Programa de Pós-graduação em Genética e Biologia Molecular/Universidade Estadual de Londrina - UEL; Alexandre R. Paschoal, Programa de pós-graduação em Bioinformática/Universidade Tecnológica Federal do Paraná; Anderson R. Meda, Laboratório de Biotecnologia Vegetal, Instituto Agronômico do Paraná - IAPAR; Milton Y. Nishiyama Júnior, Laboratório Especial de Toxinologia Aplicada/Instituto Butantan; Úrsula C. de Oliveira, Laboratório Especial de Toxinologia Aplicada/Instituto Butantan; João B. Mokochinski, Departamento de Biologia Vegetal, Instituto de Biologia/Universidade Estadual de Campinas; Romain Guyot, IRD, UMR IPME, COFFEEADAPT; Inácio L. M. Junqueira-de-Azevedo, Laboratório Especial de Toxinologia Aplicada/Instituto Butantan; Antônio V. O. Figueira, Centro de Energia Nuclear na Agricultura/Universidade de São Paulo - USP; Paulo Mazzafera, Programa de Pós-graduação em Genética e Biologia Molecular/Universidade Estadual de Londrina - UEL; Osvaldo R. Júnior, Life Sciences Core Facility - LaCTAD/Universidade Estadual de Campinas; Luiz G. E. Vieira, Universidade do Oeste Paulista; LUIZ FILIPE PROTASIO PEREIRA, CNPCa; Douglas S. Domingues, Departamento de Botânica/Instituto de Biociências de Rio Claro/Universidade Estadual Paulista. |
|
Título: |
An integrated analysis of mRNA and sRNA transcriptional profiles in Coffea arabica L. roots: insights on nitrogen starvation responses. |
|
Ano de publicação: |
2019 |
|
Fonte/Imprenta: |
Functional & Integrative Genomics, v. 19, n. 1, p. 151-169, January, 2019 |
|
Idioma: |
Inglês |
|
Conteúdo: |
Coffea arabica L. is an important agricultural commodity, accounting for 60% of traded coffee worldwide. Nitrogen (N) is a macronutrient that is usually limiting to plant yield; however, molecular mechanisms of plant acclimation to N limitation remain largely unknown in tropical woody crops. In this study, we investigated the transcriptome of coffee roots under N starvation, analyzing poly-A+ libraries and small RNAs. We also evaluated the concentration of selected amino acids and N-source preferences in roots. Ammonium was preferentially taken up over nitrate, and asparagine and glutamate were the most abundant amino acids observed in coffee roots.We obtained 34,654 assembled contigs by mRNA sequencing, and validated the transcriptional profile of 12 genes by RT-qPCR. Illumina small RNA sequencing yielded 8,524,332 non-redundant reads, resulting in the identification of 86 microRNA families targeting 253 genes. The transcriptional pattern of eight miRNA families was also validated. To our knowledge, this is the first catalog of differentially regulated amino acids, N sources, mRNAs, and sRNAs in Arabica coffee roots. |
|
Palavras-Chave: |
Differential gene expression; Nitrogen transport; RNA-seq. |
|
Thesaurus NAL: |
MicroRNA. |
|
Categoria do assunto: |
-- |
|
URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/196962/1/An-integrated-analysis-of-mRNA-transcriptional.pdf
|
|
Marc: |
LEADER 02379naa a2200409 a 4500
001 2108713
005 2019-05-06
008 2019 bl uuuu u00u1 u #d
100 1 $aSANTOS, T. B. dos
245 $aAn integrated analysis of mRNA and sRNA transcriptional profiles in Coffea arabica L. roots$binsights on nitrogen starvation responses.$h[electronic resource]
260 $c2019
520 $aCoffea arabica L. is an important agricultural commodity, accounting for 60% of traded coffee worldwide. Nitrogen (N) is a macronutrient that is usually limiting to plant yield; however, molecular mechanisms of plant acclimation to N limitation remain largely unknown in tropical woody crops. In this study, we investigated the transcriptome of coffee roots under N starvation, analyzing poly-A+ libraries and small RNAs. We also evaluated the concentration of selected amino acids and N-source preferences in roots. Ammonium was preferentially taken up over nitrate, and asparagine and glutamate were the most abundant amino acids observed in coffee roots.We obtained 34,654 assembled contigs by mRNA sequencing, and validated the transcriptional profile of 12 genes by RT-qPCR. Illumina small RNA sequencing yielded 8,524,332 non-redundant reads, resulting in the identification of 86 microRNA families targeting 253 genes. The transcriptional pattern of eight miRNA families was also validated. To our knowledge, this is the first catalog of differentially regulated amino acids, N sources, mRNAs, and sRNAs in Arabica coffee roots.
650 $aMicroRNA
653 $aDifferential gene expression
653 $aNitrogen transport
653 $aRNA-seq
700 1 $aSOARES, J. D. M.
700 1 $aLIMA, J. E.
700 1 $aSILVA, J. C.
700 1 $aIVAMOTO, S. T.
700 1 $aBABA, V. Y.
700 1 $aSOUZA, S. G. H.
700 1 $aLORENZETTI, A. P. R.
700 1 $aPASCHOAL, A. R.
700 1 $aMEDA, A. R.
700 1 $aNISHIYAMA JÚNIOR, M. Y.
700 1 $aOLIVEIRA, U. C. de
700 1 $aMOKOCHINSKI, J. B.
700 1 $aGUYOT, R.
700 1 $aJUNQUEIRA-DE-AZEVEDO, I. L. M.
700 1 $aFIGUEIR, A. V. O.
700 1 $aMAZZAFERA, P.
700 1 $aR. JÚNIO, O.
700 1 $aVIEIRA, L. G. E.
700 1 $aPEREIRA, L. F. P.
700 1 $aDOMINGUES, D. S.
773 $tFunctional & Integrative Genomics$gv. 19, n. 1, p. 151-169, January, 2019
Download
Esconder MarcMostrar Marc Completo |
|
Registro original: |
Embrapa Café (CNPCa) |
|
|
Biblioteca |
ID |
Origem |
Tipo/Formato |
Classificação |
Cutter |
Registro |
Volume |
Status |
Fechar
|
| Expressão de busca inválida. Verifique!!! |
|
|
