Is a non-synonymous SNP in the HvAACT1 coding region associated with acidic soil tolerance in barley?
Autor(a) principal: | |
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Data de Publicação: | 2017 |
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/1072285 |
Resumo: | The barley HvAACT1 gene codes for a citrate transporter associated with tolerance to acidic soil. In this report, we describe a single nucleotide polymorphism (SNP) in the HvAACT1 coding region that was detected as T-1,198 (in genotypes with lower root growth on acidic soil) or G-1,198 (greater root growth) and resulted in a single amino acid change (L/V-172). Molecular dynamic analysis predicted that HvAACT1 proteins with L or V-172 were stable, although the substitution led to structural changes within the protein. To evaluate the effect of the SNP on tolerance to acidic soil, barley accessions were separated into haplotypes based on the presence of a 1 kb insertion in the HvAACT1 promoter and a 21 bp insertion/deletion. These markers and the SNP-1,198 allowed the identification of five haplotypes. Short-term soil experiments showed no difference in root growth for most of the accessions containing the 21 bp insertion and T or G-1,198. In contrast, genotypes showing both the 21 bp deletion and G-1,198, with one of them having the 1 kb insertion, showed greater root growth. These results indicate that the SNP was not advantageous or deleterious when genotypes from the same haplotype were compared. The occurrence of the SNP was highly correlated with the 21 bp insertion/deletion that, together with the 1 kb insertion, explained most of the barley tolerance to acidic soil. |
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Is a non-synonymous SNP in the HvAACT1 coding region associated with acidic soil tolerance in barley?Aluminium toleranceCitrate transporterHaplotypeHordeum Vulgaresingle nucleotide polymorphismThe barley HvAACT1 gene codes for a citrate transporter associated with tolerance to acidic soil. In this report, we describe a single nucleotide polymorphism (SNP) in the HvAACT1 coding region that was detected as T-1,198 (in genotypes with lower root growth on acidic soil) or G-1,198 (greater root growth) and resulted in a single amino acid change (L/V-172). Molecular dynamic analysis predicted that HvAACT1 proteins with L or V-172 were stable, although the substitution led to structural changes within the protein. To evaluate the effect of the SNP on tolerance to acidic soil, barley accessions were separated into haplotypes based on the presence of a 1 kb insertion in the HvAACT1 promoter and a 21 bp insertion/deletion. These markers and the SNP-1,198 allowed the identification of five haplotypes. Short-term soil experiments showed no difference in root growth for most of the accessions containing the 21 bp insertion and T or G-1,198. In contrast, genotypes showing both the 21 bp deletion and G-1,198, with one of them having the 1 kb insertion, showed greater root growth. These results indicate that the SNP was not advantageous or deleterious when genotypes from the same haplotype were compared. The occurrence of the SNP was highly correlated with the 21 bp insertion/deletion that, together with the 1 kb insertion, explained most of the barley tolerance to acidic soil.Jéssica Rosset Ferreira, Universidade Federal do Rio Grande do Sul; Bruna Franciele Faria, Universidade Federal de São João Del Rei; Moacyr Comar Junior, Universidade Federal de São João Del Rei; Carla Andréa Delatorre, Universidade Federal do Rio Grande do Sul; EUCLYDES MINELLA, CNPT; JORGE FERNANDO PEREIRA, CNPGL.FERREIRA, J. R.FARIA, B. F.JUNIOR, M. C.DELATORRE, C. A.MINELLA, E.PEREIRA, J. F.2017-07-07T11:11:11Z2017-07-07T11:11:11Z2017-07-0720172017-07-07T11:11:11Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleGenetics and Molecular Biology, v. 40, n. 2, p. 480-490, 2017.http://www.alice.cnptia.embrapa.br/alice/handle/doc/1072285enginfo: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:EMBRAPA2017-08-16T04:35:13Zoai:www.alice.cnptia.embrapa.br:doc/1072285Repositório InstitucionalPUBhttps://www.alice.cnptia.embrapa.br/oai/requestopendoar:21542017-08-16T04:35:13falseRepositório InstitucionalPUBhttps://www.alice.cnptia.embrapa.br/oai/requestcg-riaa@embrapa.bropendoar:21542017-08-16T04:35:13Repositório 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 |
Is a non-synonymous SNP in the HvAACT1 coding region associated with acidic soil tolerance in barley? |
title |
Is a non-synonymous SNP in the HvAACT1 coding region associated with acidic soil tolerance in barley? |
spellingShingle |
Is a non-synonymous SNP in the HvAACT1 coding region associated with acidic soil tolerance in barley? FERREIRA, J. R. Aluminium tolerance Citrate transporter Haplotype Hordeum Vulgare single nucleotide polymorphism |
title_short |
Is a non-synonymous SNP in the HvAACT1 coding region associated with acidic soil tolerance in barley? |
title_full |
Is a non-synonymous SNP in the HvAACT1 coding region associated with acidic soil tolerance in barley? |
title_fullStr |
Is a non-synonymous SNP in the HvAACT1 coding region associated with acidic soil tolerance in barley? |
title_full_unstemmed |
Is a non-synonymous SNP in the HvAACT1 coding region associated with acidic soil tolerance in barley? |
title_sort |
Is a non-synonymous SNP in the HvAACT1 coding region associated with acidic soil tolerance in barley? |
author |
FERREIRA, J. R. |
author_facet |
FERREIRA, J. R. FARIA, B. F. JUNIOR, M. C. DELATORRE, C. A. MINELLA, E. PEREIRA, J. F. |
author_role |
author |
author2 |
FARIA, B. F. JUNIOR, M. C. DELATORRE, C. A. MINELLA, E. PEREIRA, J. F. |
author2_role |
author author author author author |
dc.contributor.none.fl_str_mv |
Jéssica Rosset Ferreira, Universidade Federal do Rio Grande do Sul; Bruna Franciele Faria, Universidade Federal de São João Del Rei; Moacyr Comar Junior, Universidade Federal de São João Del Rei; Carla Andréa Delatorre, Universidade Federal do Rio Grande do Sul; EUCLYDES MINELLA, CNPT; JORGE FERNANDO PEREIRA, CNPGL. |
dc.contributor.author.fl_str_mv |
FERREIRA, J. R. FARIA, B. F. JUNIOR, M. C. DELATORRE, C. A. MINELLA, E. PEREIRA, J. F. |
dc.subject.por.fl_str_mv |
Aluminium tolerance Citrate transporter Haplotype Hordeum Vulgare single nucleotide polymorphism |
topic |
Aluminium tolerance Citrate transporter Haplotype Hordeum Vulgare single nucleotide polymorphism |
description |
The barley HvAACT1 gene codes for a citrate transporter associated with tolerance to acidic soil. In this report, we describe a single nucleotide polymorphism (SNP) in the HvAACT1 coding region that was detected as T-1,198 (in genotypes with lower root growth on acidic soil) or G-1,198 (greater root growth) and resulted in a single amino acid change (L/V-172). Molecular dynamic analysis predicted that HvAACT1 proteins with L or V-172 were stable, although the substitution led to structural changes within the protein. To evaluate the effect of the SNP on tolerance to acidic soil, barley accessions were separated into haplotypes based on the presence of a 1 kb insertion in the HvAACT1 promoter and a 21 bp insertion/deletion. These markers and the SNP-1,198 allowed the identification of five haplotypes. Short-term soil experiments showed no difference in root growth for most of the accessions containing the 21 bp insertion and T or G-1,198. In contrast, genotypes showing both the 21 bp deletion and G-1,198, with one of them having the 1 kb insertion, showed greater root growth. These results indicate that the SNP was not advantageous or deleterious when genotypes from the same haplotype were compared. The occurrence of the SNP was highly correlated with the 21 bp insertion/deletion that, together with the 1 kb insertion, explained most of the barley tolerance to acidic soil. |
publishDate |
2017 |
dc.date.none.fl_str_mv |
2017-07-07T11:11:11Z 2017-07-07T11:11:11Z 2017-07-07 2017 2017-07-07T11:11:11Z |
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 |
Genetics and Molecular Biology, v. 40, n. 2, p. 480-490, 2017. http://www.alice.cnptia.embrapa.br/alice/handle/doc/1072285 |
identifier_str_mv |
Genetics and Molecular Biology, v. 40, n. 2, p. 480-490, 2017. |
url |
http://www.alice.cnptia.embrapa.br/alice/handle/doc/1072285 |
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 |
instname_str |
Empresa Brasileira de Pesquisa Agropecuária (Embrapa) |
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EMBRAPA |
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EMBRAPA |
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Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) |
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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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