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Registro Completo |
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Biblioteca(s): |
Embrapa Cerrados. |
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Data corrente: |
18/07/2017 |
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Data da última atualização: |
11/08/2017 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
PESSOA FILHO, M. A. C. de P.; MARTINS, A. M.; FERREIRA, M. E. |
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Afiliação: |
MARCO AURELIO CALDAS DE PINHO PESSO, CPAC; ALEXANDRE MAGALHÃES MARTINS, CAPES; MARCIO ELIAS FERREIRA, SRI. |
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Título: |
Molecular dating of phylogenetic divergence between Urochloa species based on complete chloroplast genomes. |
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Ano de publicação: |
2017 |
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Fonte/Imprenta: |
BMC Genomics, v. 18, n. 516, 2017. |
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Páginas: |
14 p. |
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DOI: |
DOI 10.1186/s12864-017-3904-2 |
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Idioma: |
Inglês |
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Conteúdo: |
Abstract: Background: Forage species of Urochloa are planted in millions of hectares of tropical and subtropical pastures in South America. Most of the planted area is covered with four species (U. ruziziensis, U. brizantha, U. decumbens and U. humidicola). Breeding programs rely on interspecific hybridizations to increase genetic diversity and introgress traits of agronomic importance. Knowledge of phylogenetic relationships is important to optimize compatible hybridizations in Urochloa, where phylogeny has been subject of some controversy. We used next-generation sequencing to assemble the chloroplast genomes of four Urochloa species to investigate their phylogenetic relationships, compute their times of divergence and identify chloroplast DNA markers (microsatellites, SNPs and InDels). Results: Whole plastid genome sizes were 138,765 bp in U. ruziziensis, 138,945 bp in U. decumbens, 138,946 bp in U. brizantha and 138,976 bp in U. humidicola. Each Urochloa chloroplast genome contained 130 predicted coding regions and structural features that are typical of Panicoid grasses. U. brizantha and U. decumbens chloroplast sequences are highly similar and show reduced SNP, InDel and SSR polymorphism as compared to U. ruziziensis and U. humidicola. Most of the structural and sequence polymorphisms were located in intergenic regions, and reflected phylogenetic distances between species. Divergence of U. humidicola from a common ancestor with the three other Urochloa species was estimated at 9.46 mya. U. ruziziensis, U. decumbens, and U. brizantha formed a clade where the U. ruziziensis lineage would have diverged by 5.67 mya, followed by a recent divergence event between U. decumbens and U. brizantha around 1.6 mya. Conclusion: Low-coverage Illumina sequencing allowed the successful sequence analysis of plastid genomes in four species of Urochloa used as forages in the tropics. Pairwise sequence comparisons detected multiple microsatellite, SNP and InDel sites prone to be used as molecular markers in genetic analysis of Urochloa. Our results placed the origin of U. humidicola and U. ruziziensis divergence in the Miocene-Pliocene boundary, and the split between U. brizantha and U. decumbens in the Pleistocene. MenosAbstract: Background: Forage species of Urochloa are planted in millions of hectares of tropical and subtropical pastures in South America. Most of the planted area is covered with four species (U. ruziziensis, U. brizantha, U. decumbens and U. humidicola). Breeding programs rely on interspecific hybridizations to increase genetic diversity and introgress traits of agronomic importance. Knowledge of phylogenetic relationships is important to optimize compatible hybridizations in Urochloa, where phylogeny has been subject of some controversy. We used next-generation sequencing to assemble the chloroplast genomes of four Urochloa species to investigate their phylogenetic relationships, compute their times of divergence and identify chloroplast DNA markers (microsatellites, SNPs and InDels). Results: Whole plastid genome sizes were 138,765 bp in U. ruziziensis, 138,945 bp in U. decumbens, 138,946 bp in U. brizantha and 138,976 bp in U. humidicola. Each Urochloa chloroplast genome contained 130 predicted coding regions and structural features that are typical of Panicoid grasses. U. brizantha and U. decumbens chloroplast sequences are highly similar and show reduced SNP, InDel and SSR polymorphism as compared to U. ruziziensis and U. humidicola. Most of the structural and sequence polymorphisms were located in intergenic regions, and reflected phylogenetic distances between species. Divergence of U. humidicola from a common ancestor with the three other Urochloa species was esti... Mostrar Tudo |
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Thesagro: |
Brachiaria; Capim Urochloa; Gramínea Forrageira. |
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Categoria do assunto: |
G Melhoramento Genético |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/161894/1/s12864-017-3904-2.pdf
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Marc: |
LEADER 02874naa a2200205 a 4500
001 2072837
005 2017-08-11
008 2017 bl uuuu u00u1 u #d
024 7 $aDOI 10.1186/s12864-017-3904-2$2DOI
100 1 $aPESSOA FILHO, M. A. C. de P.
245 $aMolecular dating of phylogenetic divergence between Urochloa species based on complete chloroplast genomes.$h[electronic resource]
260 $c2017
300 $a14 p.
520 $aAbstract: Background: Forage species of Urochloa are planted in millions of hectares of tropical and subtropical pastures in South America. Most of the planted area is covered with four species (U. ruziziensis, U. brizantha, U. decumbens and U. humidicola). Breeding programs rely on interspecific hybridizations to increase genetic diversity and introgress traits of agronomic importance. Knowledge of phylogenetic relationships is important to optimize compatible hybridizations in Urochloa, where phylogeny has been subject of some controversy. We used next-generation sequencing to assemble the chloroplast genomes of four Urochloa species to investigate their phylogenetic relationships, compute their times of divergence and identify chloroplast DNA markers (microsatellites, SNPs and InDels). Results: Whole plastid genome sizes were 138,765 bp in U. ruziziensis, 138,945 bp in U. decumbens, 138,946 bp in U. brizantha and 138,976 bp in U. humidicola. Each Urochloa chloroplast genome contained 130 predicted coding regions and structural features that are typical of Panicoid grasses. U. brizantha and U. decumbens chloroplast sequences are highly similar and show reduced SNP, InDel and SSR polymorphism as compared to U. ruziziensis and U. humidicola. Most of the structural and sequence polymorphisms were located in intergenic regions, and reflected phylogenetic distances between species. Divergence of U. humidicola from a common ancestor with the three other Urochloa species was estimated at 9.46 mya. U. ruziziensis, U. decumbens, and U. brizantha formed a clade where the U. ruziziensis lineage would have diverged by 5.67 mya, followed by a recent divergence event between U. decumbens and U. brizantha around 1.6 mya. Conclusion: Low-coverage Illumina sequencing allowed the successful sequence analysis of plastid genomes in four species of Urochloa used as forages in the tropics. Pairwise sequence comparisons detected multiple microsatellite, SNP and InDel sites prone to be used as molecular markers in genetic analysis of Urochloa. Our results placed the origin of U. humidicola and U. ruziziensis divergence in the Miocene-Pliocene boundary, and the split between U. brizantha and U. decumbens in the Pleistocene.
650 $aBrachiaria
650 $aCapim Urochloa
650 $aGramínea Forrageira
700 1 $aMARTINS, A. M.
700 1 $aFERREIRA, M. E.
773 $tBMC Genomics$gv. 18, n. 516, 2017.
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Registro original: |
Embrapa Cerrados (CPAC) |
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| Registros recuperados : 6 | |
| 1. |  | ALMEIDA FILHO, J. E. de; GUIMARÃES, J. F. R.; SILVA, F. F. e; RESENDE, M. D. V. de; MUÑOZ, P.; KIRST, M.; RESENDE JUNIOR, M. F. R. The contribution of dominance to phenotype prediction in a pine breeding and simulated population. Heredity, v. 117, p. 33-41, July 2016.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Florestas. |
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| 2. | | GUIMARÃES, J. F. R.; ALMEIDA FILHO, J. E.; RESENDE JÚNIOR, M. F.; RESENDE, M. D. V. de; SILVA, F. F. e; MUÑOZ, P.; KIRST, M. Predictive ability behavior across sites after discard of SNPS with unstable effects. In: CONGRESSO BRASILEIRO DE MELHORAMENTO DE PLANTAS, 8., 2015, Goiânia. O melhoramento de plantas, o futuro da agricultura e a soberania nacional: anais. Goiânia: SBMP: UFG, 2015. Resumo.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Florestas. |
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| 3. | | ALMEIDA FILHO, J. E. de A.; GUIMARÃES, J. F. R.; SILVA, F. F. e; RESENDE, M. D. V. de; MUÑOZ, P.; KIRST, M.; RESENDE JÚNIOR, M. F. R. de. Genomic prediction of additive and non-additive effects using genetic markers and pedigrees. G3: Genes, Genomes, Genetics, v. 9, p. 2739-2748, Aug. 2019.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 2 |
| Biblioteca(s): Embrapa Florestas. |
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| 4. | | PIMENTEL, A. J. B.; GUIMARÃES, J. F. R.; SOUZA, M. A. de; RESENDE, M. D. V. de; MOURA, L. M.; ROCHA, J. R. do A. S. de C.; RIBEIRO, G. Estimação de parâmetros genéticos e predição de valor genético aditivo de trigo utilizando modelos mistos. Pesquisa Agropecuária Brasileira, Brasília, DF, v. 49, n. 11, p. 882-890, nov. 2014. Título em inglês: Estimation of genetic parameters and prediction of additive genetic value for wheat by mixed models.| Biblioteca(s): Embrapa Unidades Centrais. |
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| 5. | | PIMENTEL, A. J. B.; GUIMARÃES, J. F. R.; SOUZA, M. A. de; RESENDE, M. D. V. de; MOURA, L. M.; ROCHA, J. R. do A. S. de C.; RIBEIRO, G. Estimação de parâmetros genéticos e predição de valor genético aditivo de trigo utilizando modelos mistos. Pesquisa Agropecuária Brasileira, Brasília, v. 49, n. 11, p. 882-890, nov. 2014.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Florestas. |
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| 6. | | ALMEIDA FILHO, J. E.; TARDIN, F. D.; GUIMARAES, J. F. R.; RESENDE, M. D. V.; SILVA, F. F.; SIMEONE, M. L. F.; MENEZES, C. B. de; QUEIROZ, V. A. V. Multi-trait BLUP model indicates sorghum hybrids with genetic potential for agronomic and nutritional traits. Genetics and Molecular Research, Ribeirão Preto, v. 15, n. 1, p. 1-9, 2016.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Florestas; Embrapa Milho e Sorgo. |
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| Registros recuperados : 6 | |
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