Identification of 170 new long noncoding RNAs in Schistosoma mansoni.
Autor(a) principal: | |
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Data de Publicação: | 2018 |
Outros Autores: | , , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UFOP |
Texto Completo: | http://www.repositorio.ufop.br/handle/123456789/10987 |
Resumo: | Long noncoding RNAs (lncRNAs) are transcripts generally longer than 200 nucleotides with no or poor protein coding potential, and most of their functions are also poorly characterized. Recently, an increasing number of studies have shown that lncRNAs can be involved in various critical biological processes such as organism development or cancer progression. Little, however, is known about their effects in helminths parasites, such as Schistosoma mansoni. Here, we present a computational pipeline to identify and characterize lncRNAs from RNA-seq data with high confidence from S. mansoni adult worms. Through the utilization of different criteria such as genome localization, exon number, gene length, and stability, we identified 170 new putative lncRNAs. All novel S. mansoni lncRNAs have no conserved synteny including human and mouse. These closest protein coding genes were enriched in 10 significant Gene Ontology terms related to metabolism, transport, and biosynthesis. Fifteen putative lncRNAs showed differential expression, and three displayed sex-specific differential expressions in praziquantel sensitive and resistant adult worm couples. Together, our method can predict a set of novel lncRNAs from the RNA-seq data. Some lncRNAs are shown to be differentially expressed suggesting that those novel lncRNAs can be given high priority in further functional studies focused on praziquantel resistance. |
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Oliveira, Victor Fernandes deMoraes, Lauro Ângelo Gonçalves deMota, Ester AlvesPassos, Liana Konovaloff JannottiCoelho, Paulo Marcos ZechMattos, Ana Carolina Alves deCouto, Flávia Fernanda BúbulaCaffrey, Brian E.Marsico, AnnalisaCota, Renata Guerra de Sá2019-04-09T15:23:36Z2019-04-09T15:23:36Z2018OLIVEIRA, V. F. de et al. Identification of 170 new long noncoding RNAs in Schistosoma mansoni. BioMed Research International, v. 2018, p. 1-10, 2018. Disponível em: <https://www.hindawi.com/journals/bmri/2018/1264697/>. Acesso em: 25 fev. 2019.23146141http://www.repositorio.ufop.br/handle/123456789/10987Long noncoding RNAs (lncRNAs) are transcripts generally longer than 200 nucleotides with no or poor protein coding potential, and most of their functions are also poorly characterized. Recently, an increasing number of studies have shown that lncRNAs can be involved in various critical biological processes such as organism development or cancer progression. Little, however, is known about their effects in helminths parasites, such as Schistosoma mansoni. Here, we present a computational pipeline to identify and characterize lncRNAs from RNA-seq data with high confidence from S. mansoni adult worms. Through the utilization of different criteria such as genome localization, exon number, gene length, and stability, we identified 170 new putative lncRNAs. All novel S. mansoni lncRNAs have no conserved synteny including human and mouse. These closest protein coding genes were enriched in 10 significant Gene Ontology terms related to metabolism, transport, and biosynthesis. Fifteen putative lncRNAs showed differential expression, and three displayed sex-specific differential expressions in praziquantel sensitive and resistant adult worm couples. Together, our method can predict a set of novel lncRNAs from the RNA-seq data. Some lncRNAs are shown to be differentially expressed suggesting that those novel lncRNAs can be given high priority in further functional studies focused on praziquantel resistance.This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Fonte: O próprio artigoinfo:eu-repo/semantics/openAccessIdentification of 170 new long noncoding RNAs in Schistosoma mansoni.info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleengreponame:Repositório Institucional da UFOPinstname:Universidade Federal de Ouro Preto (UFOP)instacron:UFOPLICENSElicense.txtlicense.txttext/plain; charset=utf-8924http://www.repositorio.ufop.br/bitstream/123456789/10987/2/license.txt62604f8d955274beb56c80ce1ee5dcaeMD52ORIGINALARTIGO_Identification170New.pdfARTIGO_Identification170New.pdfapplication/pdf1857601http://www.repositorio.ufop.br/bitstream/123456789/10987/1/ARTIGO_Identification170New.pdf0141bec6f3fc7bb4be174032fe86df50MD51123456789/109872019-04-09 11:24:49.706oai:localhost:123456789/10987RGVjbGFyYcOnw6NvIGRlIGRpc3RyaWJ1acOnw6NvIG7Do28tZXhjbHVzaXZhCgpPIHJlZmVyaWRvIGF1dG9yOgoKYSlEZWNsYXJhIHF1ZSBvIGRvY3VtZW50byBlbnRyZWd1ZSDDqSBzZXUgdHJhYmFsaG8gb3JpZ2luYWwgZSBxdWUgZGV0w6ltIG8gZGlyZWl0byBkZSBjb25jZWRlciBvcyBkaXJlaXRvcyBjb250aWRvcyBuZXN0YSBsaWNlbsOnYS4gRGVjbGFyYSB0YW1iw6ltIHF1ZSBhIGVudHJlZ2EgZG8gZG9jdW1lbnRvIG7Do28gaW5mcmluZ2UsIHRhbnRvIHF1YW50byBsaGUgw6kgcG9zc8OtdmVsIHNhYmVyLCBvcyBkaXJlaXRvcyBkZSBxdWFscXVlciBwZXNzb2Egb3UgZW50aWRhZGUuCgpiKVNlIG8gZG9jdW1lbnRvIGVudHJlZ3VlIGNvbnTDqW0gbWF0ZXJpYWwgZG8gcXVhbCBuw6NvIGRldMOpbSBvcyBkaXJlaXRvcyBkZSBhdXRvciwgZGVjbGFyYSBxdWUgb2J0ZXZlIGF1dG9yaXphw6fDo28gZG8gZGV0ZW50b3IgZG9zIGRpcmVpdG9zIGRlIGF1dG9yIHBhcmEgY29uY2VkZXIgw6AgVW5pdmVyc2lkYWRlIEZlZGVyYWwgZGUgT3VybyBQcmV0by9VRk9QIG9zIGRpcmVpdG9zIHJlcXVlcmlkb3MgcG9yIGVzdGEgbGljZW7Dp2EgZSBxdWUgZXNzZSBtYXRlcmlhbCwgY3Vqb3MgZGlyZWl0b3Mgc8OjbyBkZSB0ZXJjZWlyb3MsIGVzdMOhIGNsYXJhbWVudGUgaWRlbnRpZmljYWRvIGUgcmVjb25oZWNpZG8gbm8gdGV4dG8gb3UgY29udGXDumRvcyBkbyBkb2N1bWVudG8gZW50cmVndWUuCgpjKVNlIG8gZG9jdW1lbnRvIGVudHJlZ3VlIMOpIGJhc2VhZG8gZW0gdHJhYmFsaG8gZmluYW5jaWFkbyBvdSBhcG9pYWRvIHBvciBvdXRyYSBpbnN0aXR1acOnw6NvIHF1ZSBuw6NvIGEgVUZPUCwgZGVjbGFyYSBxdWUgY3VtcHJpdSBxdWFpc3F1ZXIgb2JyaWdhw6fDtWVzIGV4aWdpZGFzIHBlbG8gY29udHJhdG8gb3UgYWNvcmRvLgoKRepositório InstitucionalPUBhttp://www.repositorio.ufop.br/oai/requestrepositorio@ufop.edu.bropendoar:32332019-04-09T15:24:49Repositório Institucional da UFOP - Universidade Federal de Ouro Preto (UFOP)false |
dc.title.pt_BR.fl_str_mv |
Identification of 170 new long noncoding RNAs in Schistosoma mansoni. |
title |
Identification of 170 new long noncoding RNAs in Schistosoma mansoni. |
spellingShingle |
Identification of 170 new long noncoding RNAs in Schistosoma mansoni. Oliveira, Victor Fernandes de |
title_short |
Identification of 170 new long noncoding RNAs in Schistosoma mansoni. |
title_full |
Identification of 170 new long noncoding RNAs in Schistosoma mansoni. |
title_fullStr |
Identification of 170 new long noncoding RNAs in Schistosoma mansoni. |
title_full_unstemmed |
Identification of 170 new long noncoding RNAs in Schistosoma mansoni. |
title_sort |
Identification of 170 new long noncoding RNAs in Schistosoma mansoni. |
author |
Oliveira, Victor Fernandes de |
author_facet |
Oliveira, Victor Fernandes de Moraes, Lauro Ângelo Gonçalves de Mota, Ester Alves Passos, Liana Konovaloff Jannotti Coelho, Paulo Marcos Zech Mattos, Ana Carolina Alves de Couto, Flávia Fernanda Búbula Caffrey, Brian E. Marsico, Annalisa Cota, Renata Guerra de Sá |
author_role |
author |
author2 |
Moraes, Lauro Ângelo Gonçalves de Mota, Ester Alves Passos, Liana Konovaloff Jannotti Coelho, Paulo Marcos Zech Mattos, Ana Carolina Alves de Couto, Flávia Fernanda Búbula Caffrey, Brian E. Marsico, Annalisa Cota, Renata Guerra de Sá |
author2_role |
author author author author author author author author author |
dc.contributor.author.fl_str_mv |
Oliveira, Victor Fernandes de Moraes, Lauro Ângelo Gonçalves de Mota, Ester Alves Passos, Liana Konovaloff Jannotti Coelho, Paulo Marcos Zech Mattos, Ana Carolina Alves de Couto, Flávia Fernanda Búbula Caffrey, Brian E. Marsico, Annalisa Cota, Renata Guerra de Sá |
description |
Long noncoding RNAs (lncRNAs) are transcripts generally longer than 200 nucleotides with no or poor protein coding potential, and most of their functions are also poorly characterized. Recently, an increasing number of studies have shown that lncRNAs can be involved in various critical biological processes such as organism development or cancer progression. Little, however, is known about their effects in helminths parasites, such as Schistosoma mansoni. Here, we present a computational pipeline to identify and characterize lncRNAs from RNA-seq data with high confidence from S. mansoni adult worms. Through the utilization of different criteria such as genome localization, exon number, gene length, and stability, we identified 170 new putative lncRNAs. All novel S. mansoni lncRNAs have no conserved synteny including human and mouse. These closest protein coding genes were enriched in 10 significant Gene Ontology terms related to metabolism, transport, and biosynthesis. Fifteen putative lncRNAs showed differential expression, and three displayed sex-specific differential expressions in praziquantel sensitive and resistant adult worm couples. Together, our method can predict a set of novel lncRNAs from the RNA-seq data. Some lncRNAs are shown to be differentially expressed suggesting that those novel lncRNAs can be given high priority in further functional studies focused on praziquantel resistance. |
publishDate |
2018 |
dc.date.issued.fl_str_mv |
2018 |
dc.date.accessioned.fl_str_mv |
2019-04-09T15:23:36Z |
dc.date.available.fl_str_mv |
2019-04-09T15:23:36Z |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.citation.fl_str_mv |
OLIVEIRA, V. F. de et al. Identification of 170 new long noncoding RNAs in Schistosoma mansoni. BioMed Research International, v. 2018, p. 1-10, 2018. Disponível em: <https://www.hindawi.com/journals/bmri/2018/1264697/>. Acesso em: 25 fev. 2019. |
dc.identifier.uri.fl_str_mv |
http://www.repositorio.ufop.br/handle/123456789/10987 |
dc.identifier.issn.none.fl_str_mv |
23146141 |
identifier_str_mv |
OLIVEIRA, V. F. de et al. Identification of 170 new long noncoding RNAs in Schistosoma mansoni. BioMed Research International, v. 2018, p. 1-10, 2018. Disponível em: <https://www.hindawi.com/journals/bmri/2018/1264697/>. Acesso em: 25 fev. 2019. 23146141 |
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http://www.repositorio.ufop.br/handle/123456789/10987 |
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eng |
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