Genome-wide identification of microRNA targets in the neglected disease pathogens of the genus Echinococcus

Autores
Macchiaroli, Natalia; Maldonado, Lucas; Zarowiecki, Magdalena; Cucher, Marcela Alejandra; Gismondi, Maria Ines; Kamenetzky, Laura; Rosenzvit, Mara Cecilia
Año de publicación
2017
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
MicroRNAs (miRNAs), a class of small non-coding RNAs, are key regulators of gene expression at posttranscriptional level and play essential roles in biological processes such as development. MiRNAs silence target mRNAs by binding to complementary sequences in the 3′untranslated regions (3′UTRs). The parasitic helminths of the genus Echinococcus are the causative agents of echinococcosis, a zoonotic neglected disease. In previous work, we performed a comprehensive identification and characterization of Echinococcus miRNAs. However, current knowledge about their targets is limited. Since target prediction algorithms rely on complementarity between 3′UTRs and miRNA sequences, a major limitation is the lack of accurate sequence information of 3′UTR for most species including parasitic helminths. We performed RNA-seq and developed a pipeline that integrates the transcriptomic data with available genomic data of this parasite in order to identify 3′UTRs of Echinococcus canadensis. The high confidence set of 3′UTRs obtained allowed the prediction of miRNA targets in Echinococcus through a bioinformatic approach. We performed for the first time a comparative analysis of miRNA targets in Echinococcus and Taenia. We found that many evolutionarily conserved target sites in Echinococcus and Taenia may be functional and under selective pressure. Signaling pathways such as MAPK and Wnt were among the most represented pathways indicating miRNA roles in parasite growth and development. Genome-wide identification and characterization of miRNA target genes in Echinococcus provide valuable information to guide experimental studies in order to understand miRNA functions in the parasites biology. miRNAs involved in essential functions, especially those being absent in the host or showing sequence divergence with respect to host orthologs, might be considered as novel therapeutic targets for echinococcosis control.
Inst. de Biotecnología
Fil: Macchiaroli, Natalia. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones en Microbiología y Parasitología Médicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Maldonado, Lucas. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones en Microbiología y Parasitología Médicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Zarowiecki, Magdalena. Wellcome Trust Sanger Institute. Parasite Genomics Group; Reino Unido
Fil: Cucher, Marcela Alejandra. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones en Microbiología y Parasitología Médicas; Argentina
Fil: Gismondi, Maria Ines. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina
Fil: Rosenzvit, Mara Cecilia. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones en Microbiología y Parasitología Médicas; Argentina
Fuente
Molecular and biochemical parasitology 214 : 91-100. (2017)
Materia
Genética
ARN
Echinococcus
Patógenos
RNA
Genetics
Pathogens
Nivel de accesibilidad
acceso restringido
Condiciones de uso
Repositorio
INTA Digital (INTA)
Institución
Instituto Nacional de Tecnología Agropecuaria
OAI Identificador
oai:localhost:20.500.12123/945
Acceder
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spelling Genome-wide identification of microRNA targets in the neglected disease pathogens of the genus EchinococcusMacchiaroli, NataliaMaldonado, LucasZarowiecki, MagdalenaCucher, Marcela AlejandraGismondi, Maria InesKamenetzky, LauraRosenzvit, Mara CeciliaGenéticaARNEchinococcusPatógenosRNAGeneticsPathogensMicroRNAs (miRNAs), a class of small non-coding RNAs, are key regulators of gene expression at posttranscriptional level and play essential roles in biological processes such as development. MiRNAs silence target mRNAs by binding to complementary sequences in the 3′untranslated regions (3′UTRs). The parasitic helminths of the genus Echinococcus are the causative agents of echinococcosis, a zoonotic neglected disease. In previous work, we performed a comprehensive identification and characterization of Echinococcus miRNAs. However, current knowledge about their targets is limited. Since target prediction algorithms rely on complementarity between 3′UTRs and miRNA sequences, a major limitation is the lack of accurate sequence information of 3′UTR for most species including parasitic helminths. We performed RNA-seq and developed a pipeline that integrates the transcriptomic data with available genomic data of this parasite in order to identify 3′UTRs of Echinococcus canadensis. The high confidence set of 3′UTRs obtained allowed the prediction of miRNA targets in Echinococcus through a bioinformatic approach. We performed for the first time a comparative analysis of miRNA targets in Echinococcus and Taenia. We found that many evolutionarily conserved target sites in Echinococcus and Taenia may be functional and under selective pressure. Signaling pathways such as MAPK and Wnt were among the most represented pathways indicating miRNA roles in parasite growth and development. Genome-wide identification and characterization of miRNA target genes in Echinococcus provide valuable information to guide experimental studies in order to understand miRNA functions in the parasites biology. miRNAs involved in essential functions, especially those being absent in the host or showing sequence divergence with respect to host orthologs, might be considered as novel therapeutic targets for echinococcosis control.Inst. de BiotecnologíaFil: Macchiaroli, Natalia. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones en Microbiología y Parasitología Médicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Maldonado, Lucas. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones en Microbiología y Parasitología Médicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Zarowiecki, Magdalena. Wellcome Trust Sanger Institute. Parasite Genomics Group; Reino UnidoFil: Cucher, Marcela Alejandra. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones en Microbiología y Parasitología Médicas; ArgentinaFil: Gismondi, Maria Ines. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; ArgentinaFil: Rosenzvit, Mara Cecilia. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones en Microbiología y Parasitología Médicas; Argentina2017-08-10T13:48:27Z2017-08-10T13:48:27Z2017-06info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttp://hdl.handle.net/20.500.12123/945http://www.sciencedirect.com/science/article/pii/S0166685117300488?via%3Dihub0166-6851https://doi.org/10.1016/j.molbiopara.2017.04.001Molecular and biochemical parasitology 214 : 91-100. (2017)reponame:INTA Digital (INTA)instname:Instituto Nacional de Tecnología Agropecuariaenginfo:eu-repo/semantics/restrictedAccess2025-11-06T09:39:18Zoai:localhost:20.500.12123/945instacron:INTAInstitucionalhttp://repositorio.inta.gob.ar/Organismo científico-tecnológicoNo correspondehttp://repositorio.inta.gob.ar/oai/requesttripaldi.nicolas@inta.gob.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:l2025-11-06 09:39:18.717INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuariafalse
dc.title.none.fl_str_mv Genome-wide identification of microRNA targets in the neglected disease pathogens of the genus Echinococcus
title Genome-wide identification of microRNA targets in the neglected disease pathogens of the genus Echinococcus
spellingShingle Genome-wide identification of microRNA targets in the neglected disease pathogens of the genus Echinococcus
Macchiaroli, Natalia
Genética
ARN
Echinococcus
Patógenos
RNA
Genetics
Pathogens
title_short Genome-wide identification of microRNA targets in the neglected disease pathogens of the genus Echinococcus
title_full Genome-wide identification of microRNA targets in the neglected disease pathogens of the genus Echinococcus
title_fullStr Genome-wide identification of microRNA targets in the neglected disease pathogens of the genus Echinococcus
title_full_unstemmed Genome-wide identification of microRNA targets in the neglected disease pathogens of the genus Echinococcus
title_sort Genome-wide identification of microRNA targets in the neglected disease pathogens of the genus Echinococcus
dc.creator.none.fl_str_mv Macchiaroli, Natalia
Maldonado, Lucas
Zarowiecki, Magdalena
Cucher, Marcela Alejandra
Gismondi, Maria Ines
Kamenetzky, Laura
Rosenzvit, Mara Cecilia
author Macchiaroli, Natalia
author_facet Macchiaroli, Natalia
Maldonado, Lucas
Zarowiecki, Magdalena
Cucher, Marcela Alejandra
Gismondi, Maria Ines
Kamenetzky, Laura
Rosenzvit, Mara Cecilia
author_role author
author2 Maldonado, Lucas
Zarowiecki, Magdalena
Cucher, Marcela Alejandra
Gismondi, Maria Ines
Kamenetzky, Laura
Rosenzvit, Mara Cecilia
author2_role author
author
author
author
author
author
dc.subject.none.fl_str_mv Genética
ARN
Echinococcus
Patógenos
RNA
Genetics
Pathogens
topic Genética
ARN
Echinococcus
Patógenos
RNA
Genetics
Pathogens
dc.description.none.fl_txt_mv MicroRNAs (miRNAs), a class of small non-coding RNAs, are key regulators of gene expression at posttranscriptional level and play essential roles in biological processes such as development. MiRNAs silence target mRNAs by binding to complementary sequences in the 3′untranslated regions (3′UTRs). The parasitic helminths of the genus Echinococcus are the causative agents of echinococcosis, a zoonotic neglected disease. In previous work, we performed a comprehensive identification and characterization of Echinococcus miRNAs. However, current knowledge about their targets is limited. Since target prediction algorithms rely on complementarity between 3′UTRs and miRNA sequences, a major limitation is the lack of accurate sequence information of 3′UTR for most species including parasitic helminths. We performed RNA-seq and developed a pipeline that integrates the transcriptomic data with available genomic data of this parasite in order to identify 3′UTRs of Echinococcus canadensis. The high confidence set of 3′UTRs obtained allowed the prediction of miRNA targets in Echinococcus through a bioinformatic approach. We performed for the first time a comparative analysis of miRNA targets in Echinococcus and Taenia. We found that many evolutionarily conserved target sites in Echinococcus and Taenia may be functional and under selective pressure. Signaling pathways such as MAPK and Wnt were among the most represented pathways indicating miRNA roles in parasite growth and development. Genome-wide identification and characterization of miRNA target genes in Echinococcus provide valuable information to guide experimental studies in order to understand miRNA functions in the parasites biology. miRNAs involved in essential functions, especially those being absent in the host or showing sequence divergence with respect to host orthologs, might be considered as novel therapeutic targets for echinococcosis control.
Inst. de Biotecnología
Fil: Macchiaroli, Natalia. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones en Microbiología y Parasitología Médicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Maldonado, Lucas. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones en Microbiología y Parasitología Médicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Zarowiecki, Magdalena. Wellcome Trust Sanger Institute. Parasite Genomics Group; Reino Unido
Fil: Cucher, Marcela Alejandra. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones en Microbiología y Parasitología Médicas; Argentina
Fil: Gismondi, Maria Ines. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina
Fil: Rosenzvit, Mara Cecilia. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones en Microbiología y Parasitología Médicas; Argentina
description MicroRNAs (miRNAs), a class of small non-coding RNAs, are key regulators of gene expression at posttranscriptional level and play essential roles in biological processes such as development. MiRNAs silence target mRNAs by binding to complementary sequences in the 3′untranslated regions (3′UTRs). The parasitic helminths of the genus Echinococcus are the causative agents of echinococcosis, a zoonotic neglected disease. In previous work, we performed a comprehensive identification and characterization of Echinococcus miRNAs. However, current knowledge about their targets is limited. Since target prediction algorithms rely on complementarity between 3′UTRs and miRNA sequences, a major limitation is the lack of accurate sequence information of 3′UTR for most species including parasitic helminths. We performed RNA-seq and developed a pipeline that integrates the transcriptomic data with available genomic data of this parasite in order to identify 3′UTRs of Echinococcus canadensis. The high confidence set of 3′UTRs obtained allowed the prediction of miRNA targets in Echinococcus through a bioinformatic approach. We performed for the first time a comparative analysis of miRNA targets in Echinococcus and Taenia. We found that many evolutionarily conserved target sites in Echinococcus and Taenia may be functional and under selective pressure. Signaling pathways such as MAPK and Wnt were among the most represented pathways indicating miRNA roles in parasite growth and development. Genome-wide identification and characterization of miRNA target genes in Echinococcus provide valuable information to guide experimental studies in order to understand miRNA functions in the parasites biology. miRNAs involved in essential functions, especially those being absent in the host or showing sequence divergence with respect to host orthologs, might be considered as novel therapeutic targets for echinococcosis control.
publishDate 2017
dc.date.none.fl_str_mv 2017-08-10T13:48:27Z
2017-08-10T13:48:27Z
2017-06
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/20.500.12123/945
http://www.sciencedirect.com/science/article/pii/S0166685117300488?via%3Dihub
0166-6851
https://doi.org/10.1016/j.molbiopara.2017.04.001
url http://hdl.handle.net/20.500.12123/945
http://www.sciencedirect.com/science/article/pii/S0166685117300488?via%3Dihub
https://doi.org/10.1016/j.molbiopara.2017.04.001
identifier_str_mv 0166-6851
dc.language.none.fl_str_mv eng
language eng
dc.rights.none.fl_str_mv info:eu-repo/semantics/restrictedAccess
eu_rights_str_mv restrictedAccess
dc.format.none.fl_str_mv application/pdf
dc.source.none.fl_str_mv Molecular and biochemical parasitology 214 : 91-100. (2017)
reponame:INTA Digital (INTA)
instname:Instituto Nacional de Tecnología Agropecuaria
reponame_str INTA Digital (INTA)
collection INTA Digital (INTA)
instname_str Instituto Nacional de Tecnología Agropecuaria
repository.name.fl_str_mv INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuaria
repository.mail.fl_str_mv tripaldi.nicolas@inta.gob.ar
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