Identifying conserved and novel MicroRNAs in developing seeds of Brassica napus using deep sequencing
Autor(a) principal: | |
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Data de Publicação: | 2012 |
Outros Autores: | , , , , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UFRGS |
Texto Completo: | http://hdl.handle.net/10183/225309 |
Resumo: | MicroRNAs (miRNAs) are important post-transcriptional regulators of plant development and seed formation. In Brassica napus, an important edible oil crop, valuable lipids are synthesized and stored in specific seed tissues during embryogenesis. The miRNA transcriptome of B. napus is currently poorly characterized, especially at different seed developmental stages. This work aims to describe the miRNAome of developing seeds of B. napus by identifying plantconserved and novel miRNAs and comparing miRNA abundance in mature versus developing seeds. Members of 59 miRNA families were detected through a computational analysis of a large number of reads obtained from deep sequencing two small RNA and two RNA-seq libraries of (i) pooled immature developing stages and (ii) mature B. napus seeds. Among these miRNA families, 17 families are currently known to exist in B. napus; additionally 29 families not reported in B. napus but conserved in other plant species were identified by alignment with known plant mature miRNAs. Assembled mRNA-seq contigs allowed for a search of putative new precursors and led to the identification of 13 novel miRNA families. Analysis of miRNA population between libraries reveals that several miRNAs and isomiRNAs have different abundance in developing stages compared to mature seeds. The predicted miRNA target genes encode a broad range of proteins related to seed development and energy storage. This work presents a comparative study of the miRNA transcriptome of mature and developing B. napus seeds and provides a basis for future research on individual miRNAs and their functions in embryogenesis, seed maturation and lipid accumulation in B. napus. |
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Korbes, Ana PaulaAmorim, Carlos Eduardo GuerraMachado, Ronei DornelesGuzman, FrankAlmerão, Maurício PereiraOliveira, Luiz Felipe Valter deMorais, Guilherme Loss deZolet, Andreia Carina TurchettoCagliari, AlexandroMaraschin, Felipe dos SantosMargis-Pinheiro, MárciaMargis, Rogerio2021-08-06T04:42:36Z20121932-6203http://hdl.handle.net/10183/225309000900270MicroRNAs (miRNAs) are important post-transcriptional regulators of plant development and seed formation. In Brassica napus, an important edible oil crop, valuable lipids are synthesized and stored in specific seed tissues during embryogenesis. The miRNA transcriptome of B. napus is currently poorly characterized, especially at different seed developmental stages. This work aims to describe the miRNAome of developing seeds of B. napus by identifying plantconserved and novel miRNAs and comparing miRNA abundance in mature versus developing seeds. Members of 59 miRNA families were detected through a computational analysis of a large number of reads obtained from deep sequencing two small RNA and two RNA-seq libraries of (i) pooled immature developing stages and (ii) mature B. napus seeds. Among these miRNA families, 17 families are currently known to exist in B. napus; additionally 29 families not reported in B. napus but conserved in other plant species were identified by alignment with known plant mature miRNAs. Assembled mRNA-seq contigs allowed for a search of putative new precursors and led to the identification of 13 novel miRNA families. Analysis of miRNA population between libraries reveals that several miRNAs and isomiRNAs have different abundance in developing stages compared to mature seeds. The predicted miRNA target genes encode a broad range of proteins related to seed development and energy storage. This work presents a comparative study of the miRNA transcriptome of mature and developing B. napus seeds and provides a basis for future research on individual miRNAs and their functions in embryogenesis, seed maturation and lipid accumulation in B. napus.application/pdfengPLoS ONE. San Francisco. Vol. 7, no. 11 (Nov. 2012), e50663, 9 p.MicroRNAsBrassica napusIdentifying conserved and novel MicroRNAs in developing seeds of Brassica napus using deep sequencingEstrangeiroinfo:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da UFRGSinstname:Universidade Federal do Rio Grande do Sul (UFRGS)instacron:UFRGSTEXT000900270.pdf.txt000900270.pdf.txtExtracted Texttext/plain51619http://www.lume.ufrgs.br/bitstream/10183/225309/2/000900270.pdf.txteb2832ad25c6ea764538db644f8511c1MD52ORIGINAL000900270.pdfTexto completo (inglês)application/pdf563475http://www.lume.ufrgs.br/bitstream/10183/225309/1/000900270.pdfd8a2d45c735601da2120e05a7fdeb82cMD5110183/2253092023-09-23 03:37:52.06907oai:www.lume.ufrgs.br:10183/225309Repositório de PublicaçõesPUBhttps://lume.ufrgs.br/oai/requestopendoar:2023-09-23T06:37:52Repositório Institucional da UFRGS - Universidade Federal do Rio Grande do Sul (UFRGS)false |
dc.title.pt_BR.fl_str_mv |
Identifying conserved and novel MicroRNAs in developing seeds of Brassica napus using deep sequencing |
title |
Identifying conserved and novel MicroRNAs in developing seeds of Brassica napus using deep sequencing |
spellingShingle |
Identifying conserved and novel MicroRNAs in developing seeds of Brassica napus using deep sequencing Korbes, Ana Paula MicroRNAs Brassica napus |
title_short |
Identifying conserved and novel MicroRNAs in developing seeds of Brassica napus using deep sequencing |
title_full |
Identifying conserved and novel MicroRNAs in developing seeds of Brassica napus using deep sequencing |
title_fullStr |
Identifying conserved and novel MicroRNAs in developing seeds of Brassica napus using deep sequencing |
title_full_unstemmed |
Identifying conserved and novel MicroRNAs in developing seeds of Brassica napus using deep sequencing |
title_sort |
Identifying conserved and novel MicroRNAs in developing seeds of Brassica napus using deep sequencing |
author |
Korbes, Ana Paula |
author_facet |
Korbes, Ana Paula Amorim, Carlos Eduardo Guerra Machado, Ronei Dorneles Guzman, Frank Almerão, Maurício Pereira Oliveira, Luiz Felipe Valter de Morais, Guilherme Loss de Zolet, Andreia Carina Turchetto Cagliari, Alexandro Maraschin, Felipe dos Santos Margis-Pinheiro, Márcia Margis, Rogerio |
author_role |
author |
author2 |
Amorim, Carlos Eduardo Guerra Machado, Ronei Dorneles Guzman, Frank Almerão, Maurício Pereira Oliveira, Luiz Felipe Valter de Morais, Guilherme Loss de Zolet, Andreia Carina Turchetto Cagliari, Alexandro Maraschin, Felipe dos Santos Margis-Pinheiro, Márcia Margis, Rogerio |
author2_role |
author author author author author author author author author author author |
dc.contributor.author.fl_str_mv |
Korbes, Ana Paula Amorim, Carlos Eduardo Guerra Machado, Ronei Dorneles Guzman, Frank Almerão, Maurício Pereira Oliveira, Luiz Felipe Valter de Morais, Guilherme Loss de Zolet, Andreia Carina Turchetto Cagliari, Alexandro Maraschin, Felipe dos Santos Margis-Pinheiro, Márcia Margis, Rogerio |
dc.subject.por.fl_str_mv |
MicroRNAs Brassica napus |
topic |
MicroRNAs Brassica napus |
description |
MicroRNAs (miRNAs) are important post-transcriptional regulators of plant development and seed formation. In Brassica napus, an important edible oil crop, valuable lipids are synthesized and stored in specific seed tissues during embryogenesis. The miRNA transcriptome of B. napus is currently poorly characterized, especially at different seed developmental stages. This work aims to describe the miRNAome of developing seeds of B. napus by identifying plantconserved and novel miRNAs and comparing miRNA abundance in mature versus developing seeds. Members of 59 miRNA families were detected through a computational analysis of a large number of reads obtained from deep sequencing two small RNA and two RNA-seq libraries of (i) pooled immature developing stages and (ii) mature B. napus seeds. Among these miRNA families, 17 families are currently known to exist in B. napus; additionally 29 families not reported in B. napus but conserved in other plant species were identified by alignment with known plant mature miRNAs. Assembled mRNA-seq contigs allowed for a search of putative new precursors and led to the identification of 13 novel miRNA families. Analysis of miRNA population between libraries reveals that several miRNAs and isomiRNAs have different abundance in developing stages compared to mature seeds. The predicted miRNA target genes encode a broad range of proteins related to seed development and energy storage. This work presents a comparative study of the miRNA transcriptome of mature and developing B. napus seeds and provides a basis for future research on individual miRNAs and their functions in embryogenesis, seed maturation and lipid accumulation in B. napus. |
publishDate |
2012 |
dc.date.issued.fl_str_mv |
2012 |
dc.date.accessioned.fl_str_mv |
2021-08-06T04:42:36Z |
dc.type.driver.fl_str_mv |
Estrangeiro info:eu-repo/semantics/article |
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http://hdl.handle.net/10183/225309 |
dc.identifier.issn.pt_BR.fl_str_mv |
1932-6203 |
dc.identifier.nrb.pt_BR.fl_str_mv |
000900270 |
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url |
http://hdl.handle.net/10183/225309 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.ispartof.pt_BR.fl_str_mv |
PLoS ONE. San Francisco. Vol. 7, no. 11 (Nov. 2012), e50663, 9 p. |
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info:eu-repo/semantics/openAccess |
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openAccess |
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