sRNAs as possible regulators of retrotransposon activity in Cryptococcus gattii VGII
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 UFRGS |
Texto Completo: | http://hdl.handle.net/10183/221827 |
Resumo: | Background: The absence of Argonaute genes in the fungal pathogen Cryptococcus gattii R265 and other VGII strains indicates that yeasts of this genotype cannot have a functional RNAi pathway, an evolutionarily conserved gene silencing mechanism performed by small RNAs. The success of the R265 strain as a pathogen that caused the Pacific Northwest and Vancouver Island outbreaks may imply that RNAi machinery loss could be beneficial under certain circumstances during evolution. As a result, a hypermutant phenotype would be created with high rates of genome retrotransposition, for instance. This study therefore aimed to evaluate in silicio the effect of retrotransposons and their control mechanisms by small RNAs on genomic stability and synteny loss of C. gattii R265 through retrotransposons sequence comparison and orthology analysis with other 16 C. gattii genomic sequences available. Results: Retrotransposon mining identified a higher sequence count to VGI genotype compared to VGII, VGIII, and VGIV. However, despite the lower retrotransposon number, VGII exhibited increased synteny loss and genome rearrangement events. RNA-Seq analysis indicated highly expressed retrotransposons as well as sRNA production. Conclusions: Genome rearrangement and synteny loss may suggest a greater retrotransposon mobilization caused by RNAi pathway absence, but the effective presence of sRNAs that matches retrotransposon sequences means that an alternative retrotransposon silencing mechanism could be active in genomic integrity maintenance of C. gattii VGII strains. |
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Ferrarese, Patricia Aline GrösStreit, Rodrigo Silva AraujoSantos, Francine Melise dosSchrank, AugustoSilva, Lívia Kmetzsch Rosa e2021-06-02T04:34:02Z20171471-2164http://hdl.handle.net/10183/221827001072349Background: The absence of Argonaute genes in the fungal pathogen Cryptococcus gattii R265 and other VGII strains indicates that yeasts of this genotype cannot have a functional RNAi pathway, an evolutionarily conserved gene silencing mechanism performed by small RNAs. The success of the R265 strain as a pathogen that caused the Pacific Northwest and Vancouver Island outbreaks may imply that RNAi machinery loss could be beneficial under certain circumstances during evolution. As a result, a hypermutant phenotype would be created with high rates of genome retrotransposition, for instance. This study therefore aimed to evaluate in silicio the effect of retrotransposons and their control mechanisms by small RNAs on genomic stability and synteny loss of C. gattii R265 through retrotransposons sequence comparison and orthology analysis with other 16 C. gattii genomic sequences available. Results: Retrotransposon mining identified a higher sequence count to VGI genotype compared to VGII, VGIII, and VGIV. However, despite the lower retrotransposon number, VGII exhibited increased synteny loss and genome rearrangement events. RNA-Seq analysis indicated highly expressed retrotransposons as well as sRNA production. Conclusions: Genome rearrangement and synteny loss may suggest a greater retrotransposon mobilization caused by RNAi pathway absence, but the effective presence of sRNAs that matches retrotransposon sequences means that an alternative retrotransposon silencing mechanism could be active in genomic integrity maintenance of C. gattii VGII strains.application/pdfengBMC Genomics. London. Vol. 18, No. 294, (2017), p. 1-14Cryptococcus gattiiRNAiRetrotransposonsSyntenysRNAs as possible regulators of retrotransposon activity in Cryptococcus gattii VGIIEstrangeiroinfo: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:UFRGSTEXT001072349.pdf.txt001072349.pdf.txtExtracted Texttext/plain65370http://www.lume.ufrgs.br/bitstream/10183/221827/2/001072349.pdf.txt1ee7f9868d216eeb1433948394c4f906MD52ORIGINAL001072349.pdfTexto completo (inglês)application/pdf1258449http://www.lume.ufrgs.br/bitstream/10183/221827/1/001072349.pdf75e3039dedd46d8a3b6d7af7b5553d09MD5110183/2218272023-07-06 03:53:48.319519oai:www.lume.ufrgs.br:10183/221827Repositório de PublicaçõesPUBhttps://lume.ufrgs.br/oai/requestopendoar:2023-07-06T06:53:48Repositório Institucional da UFRGS - Universidade Federal do Rio Grande do Sul (UFRGS)false |
dc.title.pt_BR.fl_str_mv |
sRNAs as possible regulators of retrotransposon activity in Cryptococcus gattii VGII |
title |
sRNAs as possible regulators of retrotransposon activity in Cryptococcus gattii VGII |
spellingShingle |
sRNAs as possible regulators of retrotransposon activity in Cryptococcus gattii VGII Ferrarese, Patricia Aline Grös Cryptococcus gattii RNAi Retrotransposons Synteny |
title_short |
sRNAs as possible regulators of retrotransposon activity in Cryptococcus gattii VGII |
title_full |
sRNAs as possible regulators of retrotransposon activity in Cryptococcus gattii VGII |
title_fullStr |
sRNAs as possible regulators of retrotransposon activity in Cryptococcus gattii VGII |
title_full_unstemmed |
sRNAs as possible regulators of retrotransposon activity in Cryptococcus gattii VGII |
title_sort |
sRNAs as possible regulators of retrotransposon activity in Cryptococcus gattii VGII |
author |
Ferrarese, Patricia Aline Grös |
author_facet |
Ferrarese, Patricia Aline Grös Streit, Rodrigo Silva Araujo Santos, Francine Melise dos Schrank, Augusto Silva, Lívia Kmetzsch Rosa e |
author_role |
author |
author2 |
Streit, Rodrigo Silva Araujo Santos, Francine Melise dos Schrank, Augusto Silva, Lívia Kmetzsch Rosa e |
author2_role |
author author author author |
dc.contributor.author.fl_str_mv |
Ferrarese, Patricia Aline Grös Streit, Rodrigo Silva Araujo Santos, Francine Melise dos Schrank, Augusto Silva, Lívia Kmetzsch Rosa e |
dc.subject.por.fl_str_mv |
Cryptococcus gattii RNAi |
topic |
Cryptococcus gattii RNAi Retrotransposons Synteny |
dc.subject.eng.fl_str_mv |
Retrotransposons Synteny |
description |
Background: The absence of Argonaute genes in the fungal pathogen Cryptococcus gattii R265 and other VGII strains indicates that yeasts of this genotype cannot have a functional RNAi pathway, an evolutionarily conserved gene silencing mechanism performed by small RNAs. The success of the R265 strain as a pathogen that caused the Pacific Northwest and Vancouver Island outbreaks may imply that RNAi machinery loss could be beneficial under certain circumstances during evolution. As a result, a hypermutant phenotype would be created with high rates of genome retrotransposition, for instance. This study therefore aimed to evaluate in silicio the effect of retrotransposons and their control mechanisms by small RNAs on genomic stability and synteny loss of C. gattii R265 through retrotransposons sequence comparison and orthology analysis with other 16 C. gattii genomic sequences available. Results: Retrotransposon mining identified a higher sequence count to VGI genotype compared to VGII, VGIII, and VGIV. However, despite the lower retrotransposon number, VGII exhibited increased synteny loss and genome rearrangement events. RNA-Seq analysis indicated highly expressed retrotransposons as well as sRNA production. Conclusions: Genome rearrangement and synteny loss may suggest a greater retrotransposon mobilization caused by RNAi pathway absence, but the effective presence of sRNAs that matches retrotransposon sequences means that an alternative retrotransposon silencing mechanism could be active in genomic integrity maintenance of C. gattii VGII strains. |
publishDate |
2017 |
dc.date.issued.fl_str_mv |
2017 |
dc.date.accessioned.fl_str_mv |
2021-06-02T04:34:02Z |
dc.type.driver.fl_str_mv |
Estrangeiro info:eu-repo/semantics/article |
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http://hdl.handle.net/10183/221827 |
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1471-2164 |
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001072349 |
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1471-2164 001072349 |
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http://hdl.handle.net/10183/221827 |
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eng |
language |
eng |
dc.relation.ispartof.pt_BR.fl_str_mv |
BMC Genomics. London. Vol. 18, No. 294, (2017), p. 1-14 |
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info:eu-repo/semantics/openAccess |
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openAccess |
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