Unraveling candidate genes underlying biomass digestibility in elephant grass (Cenchrus purpureus).
Autor(a) principal: | |
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Data de Publicação: | 2019 |
Outros Autores: | , , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) |
Texto Completo: | http://www.alice.cnptia.embrapa.br/alice/handle/doc/1116956 |
Resumo: | Background: Elephant grass [Cenchrus purpureus (Schumach.) Morrone] is used for bioenergy and animal feed. In order to identify candidate genes that could be exploited for marker-assisted selection in elephant grass, this study aimed to investigate changes in predictive accuracy using genomic relationship information and simple sequence repeats for eight traits (height, green biomass, dry biomass, acid and neutral detergent fiber, lignin content, biomass digestibility, and dry matter concentration) linked to bioenergetics and animal feeding. Results: We used single-step, genome-based best linear unbiased prediction and genome association methods to investigate changes in predictive accuracy and find candidate genes using genomic relationship information. Genetic variability (p < 0.05) was detected for most of the traits evaluated. In general, the overall means for the traits varied widely over the cuttings, which was corroborated by a significant genotype by cutting interaction. Knowing the genomic relationships increased the predictive accuracy of the biomass quality traits. We found that one marker (M28_161) was significantly associated with high values of biomass digestibility. The marker had moderate linkage disequilibrium with another marker (M35_202) that, in general, was detected in genotypes with low values of biomass digestibility. In silico analysis revealed that both markers have orthologous regions in other C4 grasses such as Setaria viridis, Panicum hallii, and Panicum virgatum, and these regions are located close to candidate genes involved in the biosynthesis of cell wall molecules (xyloglucan and lignin), which support their association with biomass digestibility. Conclusions: The markers and candidate genes identified here are useful for breeding programs aimed at changing biomass digestibility in elephant grass. These markers can be used in marker-assisted selection to grow elephant grass cultivars for different uses, e.g., bioenergy production, bio-based products, co-products, bioactive compounds, and animal feed. |
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Unraveling candidate genes underlying biomass digestibility in elephant grass (Cenchrus purpureus).Gene annotationNapier grassSSR markerTrait-marker associationPennisetum PurpureumCapim ElefanteBiomassaDigestibilidadeBackground: Elephant grass [Cenchrus purpureus (Schumach.) Morrone] is used for bioenergy and animal feed. In order to identify candidate genes that could be exploited for marker-assisted selection in elephant grass, this study aimed to investigate changes in predictive accuracy using genomic relationship information and simple sequence repeats for eight traits (height, green biomass, dry biomass, acid and neutral detergent fiber, lignin content, biomass digestibility, and dry matter concentration) linked to bioenergetics and animal feeding. Results: We used single-step, genome-based best linear unbiased prediction and genome association methods to investigate changes in predictive accuracy and find candidate genes using genomic relationship information. Genetic variability (p < 0.05) was detected for most of the traits evaluated. In general, the overall means for the traits varied widely over the cuttings, which was corroborated by a significant genotype by cutting interaction. Knowing the genomic relationships increased the predictive accuracy of the biomass quality traits. We found that one marker (M28_161) was significantly associated with high values of biomass digestibility. The marker had moderate linkage disequilibrium with another marker (M35_202) that, in general, was detected in genotypes with low values of biomass digestibility. In silico analysis revealed that both markers have orthologous regions in other C4 grasses such as Setaria viridis, Panicum hallii, and Panicum virgatum, and these regions are located close to candidate genes involved in the biosynthesis of cell wall molecules (xyloglucan and lignin), which support their association with biomass digestibility. Conclusions: The markers and candidate genes identified here are useful for breeding programs aimed at changing biomass digestibility in elephant grass. These markers can be used in marker-assisted selection to grow elephant grass cultivars for different uses, e.g., bioenergy production, bio-based products, co-products, bioactive compounds, and animal feed.João Romero do Amaral Santos de Carvalho Rocha, UFV; Tiago de Souza Marçal, UFV; Felipe Vicentino Salvador, UFV; Adriel Carlos da Silva, UFV; Pedro Crescencio Souza Carneiro, UFV; MARCOS DEON VILELA DE RESENDE, CNPF; JAILTON DA COSTA CARNEIRO, CNPGL; ANA LUISA SOUSA AZEVEDO, CNPGL; JORGE FERNANDO PEREIRA, CNPGL; JUAREZ CAMPOLINA MACHADO, CNPGL.ROCHA, J. R. do A. S. de C.MARÇAL, T. de S.SALVADOR, F. V.SILVA, A. C. daCARNEIRO, P. C. S.RESENDE, M. D. V. deCARNEIRO, J. da C.AZEVEDO, A. L. S.PEREIRA, J. F.MACHADO, J. C.2019-12-16T18:14:52Z2019-12-16T18:14:52Z2019-12-1620192019-12-16T18:14:52Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleBMC Plant Biology, v. 19, article 548, 2019. 12 p.http://www.alice.cnptia.embrapa.br/alice/handle/doc/111695610.1186/s12870-019-2180-5enginfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice)instname:Empresa Brasileira de Pesquisa Agropecuária (Embrapa)instacron:EMBRAPA2019-12-16T18:14:59Zoai:www.alice.cnptia.embrapa.br:doc/1116956Repositório InstitucionalPUBhttps://www.alice.cnptia.embrapa.br/oai/requestopendoar:21542019-12-16T18:14:59falseRepositório InstitucionalPUBhttps://www.alice.cnptia.embrapa.br/oai/requestcg-riaa@embrapa.bropendoar:21542019-12-16T18:14:59Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) - Empresa Brasileira de Pesquisa Agropecuária (Embrapa)false |
dc.title.none.fl_str_mv |
Unraveling candidate genes underlying biomass digestibility in elephant grass (Cenchrus purpureus). |
title |
Unraveling candidate genes underlying biomass digestibility in elephant grass (Cenchrus purpureus). |
spellingShingle |
Unraveling candidate genes underlying biomass digestibility in elephant grass (Cenchrus purpureus). ROCHA, J. R. do A. S. de C. Gene annotation Napier grass SSR marker Trait-marker association Pennisetum Purpureum Capim Elefante Biomassa Digestibilidade |
title_short |
Unraveling candidate genes underlying biomass digestibility in elephant grass (Cenchrus purpureus). |
title_full |
Unraveling candidate genes underlying biomass digestibility in elephant grass (Cenchrus purpureus). |
title_fullStr |
Unraveling candidate genes underlying biomass digestibility in elephant grass (Cenchrus purpureus). |
title_full_unstemmed |
Unraveling candidate genes underlying biomass digestibility in elephant grass (Cenchrus purpureus). |
title_sort |
Unraveling candidate genes underlying biomass digestibility in elephant grass (Cenchrus purpureus). |
author |
ROCHA, J. R. do A. S. de C. |
author_facet |
ROCHA, J. R. do A. S. de C. MARÇAL, T. de S. SALVADOR, F. V. SILVA, A. C. da CARNEIRO, P. C. S. RESENDE, M. D. V. de CARNEIRO, J. da C. AZEVEDO, A. L. S. PEREIRA, J. F. MACHADO, J. C. |
author_role |
author |
author2 |
MARÇAL, T. de S. SALVADOR, F. V. SILVA, A. C. da CARNEIRO, P. C. S. RESENDE, M. D. V. de CARNEIRO, J. da C. AZEVEDO, A. L. S. PEREIRA, J. F. MACHADO, J. C. |
author2_role |
author author author author author author author author author |
dc.contributor.none.fl_str_mv |
João Romero do Amaral Santos de Carvalho Rocha, UFV; Tiago de Souza Marçal, UFV; Felipe Vicentino Salvador, UFV; Adriel Carlos da Silva, UFV; Pedro Crescencio Souza Carneiro, UFV; MARCOS DEON VILELA DE RESENDE, CNPF; JAILTON DA COSTA CARNEIRO, CNPGL; ANA LUISA SOUSA AZEVEDO, CNPGL; JORGE FERNANDO PEREIRA, CNPGL; JUAREZ CAMPOLINA MACHADO, CNPGL. |
dc.contributor.author.fl_str_mv |
ROCHA, J. R. do A. S. de C. MARÇAL, T. de S. SALVADOR, F. V. SILVA, A. C. da CARNEIRO, P. C. S. RESENDE, M. D. V. de CARNEIRO, J. da C. AZEVEDO, A. L. S. PEREIRA, J. F. MACHADO, J. C. |
dc.subject.por.fl_str_mv |
Gene annotation Napier grass SSR marker Trait-marker association Pennisetum Purpureum Capim Elefante Biomassa Digestibilidade |
topic |
Gene annotation Napier grass SSR marker Trait-marker association Pennisetum Purpureum Capim Elefante Biomassa Digestibilidade |
description |
Background: Elephant grass [Cenchrus purpureus (Schumach.) Morrone] is used for bioenergy and animal feed. In order to identify candidate genes that could be exploited for marker-assisted selection in elephant grass, this study aimed to investigate changes in predictive accuracy using genomic relationship information and simple sequence repeats for eight traits (height, green biomass, dry biomass, acid and neutral detergent fiber, lignin content, biomass digestibility, and dry matter concentration) linked to bioenergetics and animal feeding. Results: We used single-step, genome-based best linear unbiased prediction and genome association methods to investigate changes in predictive accuracy and find candidate genes using genomic relationship information. Genetic variability (p < 0.05) was detected for most of the traits evaluated. In general, the overall means for the traits varied widely over the cuttings, which was corroborated by a significant genotype by cutting interaction. Knowing the genomic relationships increased the predictive accuracy of the biomass quality traits. We found that one marker (M28_161) was significantly associated with high values of biomass digestibility. The marker had moderate linkage disequilibrium with another marker (M35_202) that, in general, was detected in genotypes with low values of biomass digestibility. In silico analysis revealed that both markers have orthologous regions in other C4 grasses such as Setaria viridis, Panicum hallii, and Panicum virgatum, and these regions are located close to candidate genes involved in the biosynthesis of cell wall molecules (xyloglucan and lignin), which support their association with biomass digestibility. Conclusions: The markers and candidate genes identified here are useful for breeding programs aimed at changing biomass digestibility in elephant grass. These markers can be used in marker-assisted selection to grow elephant grass cultivars for different uses, e.g., bioenergy production, bio-based products, co-products, bioactive compounds, and animal feed. |
publishDate |
2019 |
dc.date.none.fl_str_mv |
2019-12-16T18:14:52Z 2019-12-16T18:14:52Z 2019-12-16 2019 2019-12-16T18:14:52Z |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/publishedVersion info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
BMC Plant Biology, v. 19, article 548, 2019. 12 p. http://www.alice.cnptia.embrapa.br/alice/handle/doc/1116956 10.1186/s12870-019-2180-5 |
identifier_str_mv |
BMC Plant Biology, v. 19, article 548, 2019. 12 p. 10.1186/s12870-019-2180-5 |
url |
http://www.alice.cnptia.embrapa.br/alice/handle/doc/1116956 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.source.none.fl_str_mv |
reponame:Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) instname:Empresa Brasileira de Pesquisa Agropecuária (Embrapa) instacron:EMBRAPA |
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Empresa Brasileira de Pesquisa Agropecuária (Embrapa) |
instacron_str |
EMBRAPA |
institution |
EMBRAPA |
reponame_str |
Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) |
collection |
Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) |
repository.name.fl_str_mv |
Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) - Empresa Brasileira de Pesquisa Agropecuária (Embrapa) |
repository.mail.fl_str_mv |
cg-riaa@embrapa.br |
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1794503486074781696 |