Análise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídrico
Autor(a) principal: | |
---|---|
Data de Publicação: | 2020 |
Tipo de documento: | Dissertação |
Idioma: | por |
Título da fonte: | Repositório Institucional da UFSCAR |
Texto Completo: | https://repositorio.ufscar.br/handle/ufscar/13503 |
Resumo: | Drought is one of the abiotic stresses that most affect plant growth and productivity. Grasses of the genus Paspalum are used successfully in pastures and lawns, and some ecotypes of Paspalum notatum (bahiagrass) have good forage quality, while some Paspalum vaginatum (seashore paspalum) have high tolerance to salinity. In addition, the potential for drought resistance of both species has already been described, making them interesting for transcriptome studies under water deficit. The aim of the project is to evaluate the gene expression profile of two Paspalum genotypes in response to water deficit. Two genotypes (P. vaginatum BGP 114 and P. notatum BGP 216) with different drought resistance strategies were selected from five accessions of Paspalum (P. indecorum Mez BGP 24, P. notatum Flüggé BGP 216, P. vaginatum Swartz BGP 114, P. modestum Mez BGP 23 and BGP 32) previously evaluated according to their physiological characteristics under water deficit. Leaf samples in two water conditions were collected: without water stress (soil relative moisture 28%) and with 6% soil moisture reached after five days of water stress for P. notatum and eight days for P. vaginatum. RNAs were extracted from the samples and cDNA libraries were prepared, which were sequenced on the Illumina HiSeq 2500 platform. Bioinformatics analyzes were carried out to: characterize the quality of the de novo assembly transcriptomes; analyze the differential gene expression between plants with and without water stress and perform the functional annotation of genes and metabolic pathways. The gene expressions found in silico were validated via real-time PCR. From the physiological and molecular analyzes it was possible to identify that the genotypes combine different strategies to resist drought, and the avoidance and tolerance dehydration strategies were found in both accessions. The enrichment of gene ontology terms enabled the identification of specific strategies for each genotype, such as escape dehydration for P. vaginatum and dormancy for P. notatum. The characterization and classification of these accessions regarding their water stress tolerance strategies and a better understanding of the molecular and physiological mechanisms involved may contribute to the identification of genes of interest aiming at gene editing in order to develop stress-tolerant grasses better adapted to the different scenarios and climate changes. |
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Arakaki, Joyce EtsukoBorra, Ricardo Carneirohttp://lattes.cnpq.br/5655362515357840Vigna, Bianca Baccili Zanottohttp://lattes.cnpq.br/1663784979286725http://lattes.cnpq.br/0624965858019656abf5477d-fe0d-4472-bb77-f00d8be707632020-11-30T20:47:02Z2020-11-30T20:47:02Z2020-02-19ARAKAKI, Joyce Etsuko. Análise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídrico. 2020. Dissertação (Mestrado em Genética Evolutiva e Biologia Molecular) – Universidade Federal de São Carlos, São Carlos, 2020. Disponível em: https://repositorio.ufscar.br/handle/ufscar/13503.https://repositorio.ufscar.br/handle/ufscar/13503Drought is one of the abiotic stresses that most affect plant growth and productivity. Grasses of the genus Paspalum are used successfully in pastures and lawns, and some ecotypes of Paspalum notatum (bahiagrass) have good forage quality, while some Paspalum vaginatum (seashore paspalum) have high tolerance to salinity. In addition, the potential for drought resistance of both species has already been described, making them interesting for transcriptome studies under water deficit. The aim of the project is to evaluate the gene expression profile of two Paspalum genotypes in response to water deficit. Two genotypes (P. vaginatum BGP 114 and P. notatum BGP 216) with different drought resistance strategies were selected from five accessions of Paspalum (P. indecorum Mez BGP 24, P. notatum Flüggé BGP 216, P. vaginatum Swartz BGP 114, P. modestum Mez BGP 23 and BGP 32) previously evaluated according to their physiological characteristics under water deficit. Leaf samples in two water conditions were collected: without water stress (soil relative moisture 28%) and with 6% soil moisture reached after five days of water stress for P. notatum and eight days for P. vaginatum. RNAs were extracted from the samples and cDNA libraries were prepared, which were sequenced on the Illumina HiSeq 2500 platform. Bioinformatics analyzes were carried out to: characterize the quality of the de novo assembly transcriptomes; analyze the differential gene expression between plants with and without water stress and perform the functional annotation of genes and metabolic pathways. The gene expressions found in silico were validated via real-time PCR. From the physiological and molecular analyzes it was possible to identify that the genotypes combine different strategies to resist drought, and the avoidance and tolerance dehydration strategies were found in both accessions. The enrichment of gene ontology terms enabled the identification of specific strategies for each genotype, such as escape dehydration for P. vaginatum and dormancy for P. notatum. The characterization and classification of these accessions regarding their water stress tolerance strategies and a better understanding of the molecular and physiological mechanisms involved may contribute to the identification of genes of interest aiming at gene editing in order to develop stress-tolerant grasses better adapted to the different scenarios and climate changes.A seca é um dos estresses abióticos que mais afetam o crescimento e produtividade de plantas. Espécies do gênero Paspalum L. são utilizadas com sucesso em pastagens e gramados, sendo que alguns ecótipos de Paspalum notatum (grama-batatais) possuem boa qualidade de forragem, e de Paspalum vaginatum (capim-arame-da-praia; grama-rasteira-da-praia), alta tolerância à salinidade. Além disso, já foi descrito o potencial de resistência à seca de ambas as espécies, tornando-as interessantes para estudos de transcriptoma sob déficit hídrico. O objetivo do projeto é avaliar o perfil de expressão gênica de dois genótipos de Paspalum em resposta ao déficit hídrico. Dois genótipos (P. vaginatum Swartz BGP 114 e P. notatum Flüggé BGP 216) com diferentes estratégias de resistência à seca foram selecionados a partir de avaliação fisiológica prévia de cinco acessos de Paspalum (P. indecorum Mez BGP 24, P. notatum Flüggé BGP 216, P. vaginatum Swartz BGP 114, P. modestum Mez BGP 23 e BGP 32) em resposta ao déficir hídrico. Amostras de folhas em duas condições hídricas foram coletadas: sem estresse hídrico (umidade relativa do solo 28%) e com umidade do solo a 6% alcançada após cinco dias de estresse hídrico para P. notatum e oito dias para P. vaginatum. Foram extraídos os RNAs das amostras e preparadas as bibliotecas de cDNA, as quais foram sequenciadas em plataforma Illumina HiSeq 2500. Análises de bioinformática foram realizadas para: caracterizar a qualidade da montagem de novo dos transcriptomas; analisar a expressão gênica diferencial entre plantas com e sem estresse hídrico e realizar a anotação funcional dos genes e vias metabólicas. As expressões gênicas encontradas in sílico foram validadas via PCR em tempo real. A partir das análises fisiológicas e moleculares foi possível identificar que os genótipos combinam diferentes estratégias para resistir a seca, sendo que as estratégias de desidratação de retardo e de tolerância foram encontradas em ambos os acessos. O enriquecimento de termos de ontologia gênica possibilitou a identificação de estratégias específicas de cada genótipo, como a desidratação de escape para P. vaginatum e dormência para P. notatum. A caracterização e classificação desses acessos quanto às suas estratégias de tolerância ao estresse hídrico e o melhor entendimento dos mecanismos moleculares e fisiológicos envolvidos poderão contribuir para a identificação de genes de interesse visando a edição gênica com o objetivo de desenvolver gramíneas estresse-tolerantes mais bem adaptadas aos diferentes cenários e mudanças climáticas.Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)CAPES: Código de Financiamento 001porUniversidade Federal de São CarlosCâmpus São CarlosPrograma de Pós-Graduação em Genética Evolutiva e Biologia Molecular - PPGGEvUFSCarAttribution-NonCommercial-NoDerivs 3.0 Brazilhttp://creativecommons.org/licenses/by-nc-nd/3.0/br/info:eu-repo/semantics/openAccessSecaDesidrataçãoRNA-seqExpressão gênica diferencialDroughtDehydrationCIENCIAS BIOLOGICAS::BIOLOGIA GERALCIENCIAS BIOLOGICAS::BIOQUIMICACIENCIAS BIOLOGICAS::GENETICACIENCIAS BIOLOGICAS::GENETICA::GENETICA VEGETALCIENCIAS AGRARIAS::ZOOTECNIA::PASTAGEM E FORRAGICULTURAAnálise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídricoAnalysis of Paspalum notatum Flüggé and Paspalum vaginatum Swartz transcriptomes under water deficit conditioninfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/masterThesis600600fc96fc18-cc22-487c-927f-5b0b6f04b3dereponame:Repositório Institucional da UFSCARinstname:Universidade Federal de São Carlos (UFSCAR)instacron:UFSCARORIGINALDissertacao_Joyce.pdfDissertacao_Joyce.pdfDissertação de mestradoapplication/pdf2578553https://repositorio.ufscar.br/bitstream/ufscar/13503/4/Dissertacao_Joyce.pdf70de4f42a297f0e741eee9f1c5d15a28MD54Carta orientador.pdfCarta orientador.pdfapplication/pdf313642https://repositorio.ufscar.br/bitstream/ufscar/13503/2/Carta%20orientador.pdfce8105a315251ec8342da7f8bd80dfdfMD52CC-LICENSElicense_rdflicense_rdfapplication/rdf+xml; charset=utf-8811https://repositorio.ufscar.br/bitstream/ufscar/13503/5/license_rdfe39d27027a6cc9cb039ad269a5db8e34MD55TEXTDissertacao_Joyce.pdf.txtDissertacao_Joyce.pdf.txtExtracted texttext/plain138202https://repositorio.ufscar.br/bitstream/ufscar/13503/6/Dissertacao_Joyce.pdf.txt05513ebb6f7e8b217427e54f4340d4a1MD56Carta orientador.pdf.txtCarta orientador.pdf.txtExtracted texttext/plain1175https://repositorio.ufscar.br/bitstream/ufscar/13503/8/Carta%20orientador.pdf.txte70ccf01660cded8e90ce294da59f69cMD58THUMBNAILDissertacao_Joyce.pdf.jpgDissertacao_Joyce.pdf.jpgIM Thumbnailimage/jpeg6400https://repositorio.ufscar.br/bitstream/ufscar/13503/7/Dissertacao_Joyce.pdf.jpgb117dada10fcf250689143f51becc8e0MD57Carta orientador.pdf.jpgCarta orientador.pdf.jpgIM Thumbnailimage/jpeg12978https://repositorio.ufscar.br/bitstream/ufscar/13503/9/Carta%20orientador.pdf.jpg239ff03a94efdbd668cfd67ea777b80fMD59ufscar/135032023-09-18 18:32:04.337oai:repositorio.ufscar.br:ufscar/13503Repositório InstitucionalPUBhttps://repositorio.ufscar.br/oai/requestopendoar:43222023-09-18T18:32:04Repositório Institucional da UFSCAR - Universidade Federal de São Carlos (UFSCAR)false |
dc.title.por.fl_str_mv |
Análise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídrico |
dc.title.alternative.eng.fl_str_mv |
Analysis of Paspalum notatum Flüggé and Paspalum vaginatum Swartz transcriptomes under water deficit condition |
title |
Análise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídrico |
spellingShingle |
Análise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídrico Arakaki, Joyce Etsuko Seca Desidratação RNA-seq Expressão gênica diferencial Drought Dehydration CIENCIAS BIOLOGICAS::BIOLOGIA GERAL CIENCIAS BIOLOGICAS::BIOQUIMICA CIENCIAS BIOLOGICAS::GENETICA CIENCIAS BIOLOGICAS::GENETICA::GENETICA VEGETAL CIENCIAS AGRARIAS::ZOOTECNIA::PASTAGEM E FORRAGICULTURA |
title_short |
Análise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídrico |
title_full |
Análise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídrico |
title_fullStr |
Análise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídrico |
title_full_unstemmed |
Análise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídrico |
title_sort |
Análise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídrico |
author |
Arakaki, Joyce Etsuko |
author_facet |
Arakaki, Joyce Etsuko |
author_role |
author |
dc.contributor.authorlattes.por.fl_str_mv |
http://lattes.cnpq.br/0624965858019656 |
dc.contributor.author.fl_str_mv |
Arakaki, Joyce Etsuko |
dc.contributor.advisor1.fl_str_mv |
Borra, Ricardo Carneiro |
dc.contributor.advisor1Lattes.fl_str_mv |
http://lattes.cnpq.br/5655362515357840 |
dc.contributor.advisor-co1.fl_str_mv |
Vigna, Bianca Baccili Zanotto |
dc.contributor.advisor-co1Lattes.fl_str_mv |
http://lattes.cnpq.br/1663784979286725 |
dc.contributor.authorID.fl_str_mv |
abf5477d-fe0d-4472-bb77-f00d8be70763 |
contributor_str_mv |
Borra, Ricardo Carneiro Vigna, Bianca Baccili Zanotto |
dc.subject.por.fl_str_mv |
Seca Desidratação RNA-seq Expressão gênica diferencial |
topic |
Seca Desidratação RNA-seq Expressão gênica diferencial Drought Dehydration CIENCIAS BIOLOGICAS::BIOLOGIA GERAL CIENCIAS BIOLOGICAS::BIOQUIMICA CIENCIAS BIOLOGICAS::GENETICA CIENCIAS BIOLOGICAS::GENETICA::GENETICA VEGETAL CIENCIAS AGRARIAS::ZOOTECNIA::PASTAGEM E FORRAGICULTURA |
dc.subject.eng.fl_str_mv |
Drought Dehydration |
dc.subject.cnpq.fl_str_mv |
CIENCIAS BIOLOGICAS::BIOLOGIA GERAL CIENCIAS BIOLOGICAS::BIOQUIMICA CIENCIAS BIOLOGICAS::GENETICA CIENCIAS BIOLOGICAS::GENETICA::GENETICA VEGETAL CIENCIAS AGRARIAS::ZOOTECNIA::PASTAGEM E FORRAGICULTURA |
description |
Drought is one of the abiotic stresses that most affect plant growth and productivity. Grasses of the genus Paspalum are used successfully in pastures and lawns, and some ecotypes of Paspalum notatum (bahiagrass) have good forage quality, while some Paspalum vaginatum (seashore paspalum) have high tolerance to salinity. In addition, the potential for drought resistance of both species has already been described, making them interesting for transcriptome studies under water deficit. The aim of the project is to evaluate the gene expression profile of two Paspalum genotypes in response to water deficit. Two genotypes (P. vaginatum BGP 114 and P. notatum BGP 216) with different drought resistance strategies were selected from five accessions of Paspalum (P. indecorum Mez BGP 24, P. notatum Flüggé BGP 216, P. vaginatum Swartz BGP 114, P. modestum Mez BGP 23 and BGP 32) previously evaluated according to their physiological characteristics under water deficit. Leaf samples in two water conditions were collected: without water stress (soil relative moisture 28%) and with 6% soil moisture reached after five days of water stress for P. notatum and eight days for P. vaginatum. RNAs were extracted from the samples and cDNA libraries were prepared, which were sequenced on the Illumina HiSeq 2500 platform. Bioinformatics analyzes were carried out to: characterize the quality of the de novo assembly transcriptomes; analyze the differential gene expression between plants with and without water stress and perform the functional annotation of genes and metabolic pathways. The gene expressions found in silico were validated via real-time PCR. From the physiological and molecular analyzes it was possible to identify that the genotypes combine different strategies to resist drought, and the avoidance and tolerance dehydration strategies were found in both accessions. The enrichment of gene ontology terms enabled the identification of specific strategies for each genotype, such as escape dehydration for P. vaginatum and dormancy for P. notatum. The characterization and classification of these accessions regarding their water stress tolerance strategies and a better understanding of the molecular and physiological mechanisms involved may contribute to the identification of genes of interest aiming at gene editing in order to develop stress-tolerant grasses better adapted to the different scenarios and climate changes. |
publishDate |
2020 |
dc.date.accessioned.fl_str_mv |
2020-11-30T20:47:02Z |
dc.date.available.fl_str_mv |
2020-11-30T20:47:02Z |
dc.date.issued.fl_str_mv |
2020-02-19 |
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info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/masterThesis |
format |
masterThesis |
status_str |
publishedVersion |
dc.identifier.citation.fl_str_mv |
ARAKAKI, Joyce Etsuko. Análise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídrico. 2020. Dissertação (Mestrado em Genética Evolutiva e Biologia Molecular) – Universidade Federal de São Carlos, São Carlos, 2020. Disponível em: https://repositorio.ufscar.br/handle/ufscar/13503. |
dc.identifier.uri.fl_str_mv |
https://repositorio.ufscar.br/handle/ufscar/13503 |
identifier_str_mv |
ARAKAKI, Joyce Etsuko. Análise dos transcriptomas de Paspalum notatum Flúggé e Paspalum vaginatum Swartz em condição de déficit hídrico. 2020. Dissertação (Mestrado em Genética Evolutiva e Biologia Molecular) – Universidade Federal de São Carlos, São Carlos, 2020. Disponível em: https://repositorio.ufscar.br/handle/ufscar/13503. |
url |
https://repositorio.ufscar.br/handle/ufscar/13503 |
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por |
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600 600 |
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fc96fc18-cc22-487c-927f-5b0b6f04b3de |
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Attribution-NonCommercial-NoDerivs 3.0 Brazil http://creativecommons.org/licenses/by-nc-nd/3.0/br/ info:eu-repo/semantics/openAccess |
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Attribution-NonCommercial-NoDerivs 3.0 Brazil http://creativecommons.org/licenses/by-nc-nd/3.0/br/ |
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openAccess |
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Universidade Federal de São Carlos Câmpus São Carlos |
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Programa de Pós-Graduação em Genética Evolutiva e Biologia Molecular - PPGGEv |
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UFSCar |
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Universidade Federal de São Carlos Câmpus São Carlos |
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