LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis

Detalhes bibliográficos
Autor(a) principal: Torres, Felipe Guimarães
Data de Publicação: 2017
Outros Autores: Carrasco, Raúl Arias, Maldonado, José C. Caris, Barral, Aldina Maria Prado, Coutinho, Vinicius Maracaja, Queiroz, Artur Trancoso Lopo de
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da FIOCRUZ (ARCA)
Texto Completo: https://www.arca.fiocruz.br/handle/icict/25675
Resumo: Fundação de Amparo a Pesquisa do Estado da Bahia (FAPESB) [BOL3832/2014 and BOL591/2016, respectively, to F.T.], Brazil; Fondecyt Iniciaci on, Comisi on Nacional de Investigaci on Cient ıfica y Tecnol ogica (CONICYT) [11161020 toV.M.C.], Chile; Fondo de Investigaci on y Desarrollo Universidad Mayor (FIDUM) [OI 100913 to V.M.C.], Chile.
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spelling Torres, Felipe GuimarãesCarrasco, Raúl AriasMaldonado, José C. CarisBarral, Aldina Maria PradoCoutinho, Vinicius MaracajaQueiroz, Artur Trancoso Lopo de2018-04-09T12:43:22Z2018-04-09T12:43:22Z2017TORRES, F. G. et al. LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis. Database, p. 1–11, 2017.1758-0463https://www.arca.fiocruz.br/handle/icict/2567510.1093/database/bax047Fundação de Amparo a Pesquisa do Estado da Bahia (FAPESB) [BOL3832/2014 and BOL591/2016, respectively, to F.T.], Brazil; Fondecyt Iniciaci on, Comisi on Nacional de Investigaci on Cient ıfica y Tecnol ogica (CONICYT) [11161020 toV.M.C.], Chile; Fondo de Investigaci on y Desarrollo Universidad Mayor (FIDUM) [OI 100913 to V.M.C.], Chile.Fundação Oswaldo Cruz. Centro de Pesquisas Gonçalo Moniz. Salvador, BA, Brasil / Universidade Estadual de Feira de Santana. P os-Graduação em Computação Aplicada. Feira de Santana, BA, BrasilUniversidad Mayor. Facultad de Ciencias Centro de Genomica y Bioinformatica. Santiago, ChileUniversidad Mayor. Facultad de Ciencias Centro de Genomica y Bioinformatica. Santiago, ChileFundação Oswaldo Cruz. Centro de Pesquisas Gonçalo Moniz. Salvador, BA, Brasil / Universidade Federal da Bahia. Salvador, BA, Brasil / Instituto Nacional de Ciência e Tecnologia de Investigação em Imunologia. São Paulo, SP, BrasilUniversidad Mayor. Facultad de Ciencias Centro de Genomica y Bioinformatica. Santiago, Chile / Beagle Bioinformatics. Santiago, Chile / Instituto Vandique. João Pessoa, PB, BrasilFundação Oswaldo Cruz. Centro de Pesquisas Gonçalo Moniz. Salvador, BA, Brasil / Universidade Estadual de Feira de Santana. P os-Graduação em Computação Aplicada. Feira de Santana, BA, Brasil / Instituto Nacional de Ciência e Tecnologia de Investigação em Imunologia. São Paulo, SP, BrasilLeishmania braziliensis is the etiological agent of cutaneous leishmaniasis, a disease with high public health importance, affecting 12 million people worldwide. Although its genome sequence was originally published in 2007, the two reference public annotations still presents at least 80% of the genes simply classified as hypothetical or putative proteins. Furthermore, it is notable the absence of non-coding RNA (ncRNA) sequences from Leishmania species in public databases. These poorly annotated coding genes and ncRNAs could be important players for the understanding of this protozoan biology, the mechanisms behind host-parasite interactions and disease control. Herein, we performed a new prediction and annotation of L. braziliensis protein-coding genes and noncoding RNAs, using recently developed predictive algorithms and updated databases. In summary, we identified 11 491 ORFs, with 5263 (45.80%) of them associated with proteins available in public databases. Moreover, we identified for the first time the repertoire of 11 243 ncRNAs belonging to different classes distributed along the genome. The accuracy of our predictions was verified by transcriptional evidence using RNA-seq, confirming that they are actually generating real transcripts. These data were organized in a public repository named LeishDB (www.leishdb.com), which represents an improvement on the publicly available data related to genomic annotation for L. braziliensis. This updated information can be useful for future genomics, transcriptomics and metabolomics studies; being an additional tool for genome annotation pipelines and novel studies associated with the understanding of this protozoan genome complexity, organization biology, and development of innovative methodologies for disease control and diagnostics.engOxford University PressLeishmania braziliensisGenomicaRNAGenes ProtozoáriosLeishmania braziliensisGenomicsRNA, UntranslatedGenes, ProtozoanLeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensisinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleinfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txtlicense.txttext/plain; charset=utf-82991https://www.arca.fiocruz.br/bitstream/icict/25675/1/license.txt5a560609d32a3863062d77ff32785d58MD51ORIGINALTorres F LeishDB a database....pdfTorres 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dc.title.pt_BR.fl_str_mv LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis
title LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis
spellingShingle LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis
Torres, Felipe Guimarães
Leishmania braziliensis
Genomica
RNA
Genes Protozoários
Leishmania braziliensis
Genomics
RNA, Untranslated
Genes, Protozoan
title_short LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis
title_full LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis
title_fullStr LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis
title_full_unstemmed LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis
title_sort LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis
author Torres, Felipe Guimarães
author_facet Torres, Felipe Guimarães
Carrasco, Raúl Arias
Maldonado, José C. Caris
Barral, Aldina Maria Prado
Coutinho, Vinicius Maracaja
Queiroz, Artur Trancoso Lopo de
author_role author
author2 Carrasco, Raúl Arias
Maldonado, José C. Caris
Barral, Aldina Maria Prado
Coutinho, Vinicius Maracaja
Queiroz, Artur Trancoso Lopo de
author2_role author
author
author
author
author
dc.contributor.author.fl_str_mv Torres, Felipe Guimarães
Carrasco, Raúl Arias
Maldonado, José C. Caris
Barral, Aldina Maria Prado
Coutinho, Vinicius Maracaja
Queiroz, Artur Trancoso Lopo de
dc.subject.other.pt_BR.fl_str_mv Leishmania braziliensis
Genomica
RNA
Genes Protozoários
topic Leishmania braziliensis
Genomica
RNA
Genes Protozoários
Leishmania braziliensis
Genomics
RNA, Untranslated
Genes, Protozoan
dc.subject.en.pt_BR.fl_str_mv Leishmania braziliensis
Genomics
RNA, Untranslated
Genes, Protozoan
description Fundação de Amparo a Pesquisa do Estado da Bahia (FAPESB) [BOL3832/2014 and BOL591/2016, respectively, to F.T.], Brazil; Fondecyt Iniciaci on, Comisi on Nacional de Investigaci on Cient ıfica y Tecnol ogica (CONICYT) [11161020 toV.M.C.], Chile; Fondo de Investigaci on y Desarrollo Universidad Mayor (FIDUM) [OI 100913 to V.M.C.], Chile.
publishDate 2017
dc.date.issued.fl_str_mv 2017
dc.date.accessioned.fl_str_mv 2018-04-09T12:43:22Z
dc.date.available.fl_str_mv 2018-04-09T12:43:22Z
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 TORRES, F. G. et al. LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis. Database, p. 1–11, 2017.
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/25675
dc.identifier.issn.pt_BR.fl_str_mv 1758-0463
dc.identifier.doi.none.fl_str_mv 10.1093/database/bax047
identifier_str_mv TORRES, F. G. et al. LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis. Database, p. 1–11, 2017.
1758-0463
10.1093/database/bax047
url https://www.arca.fiocruz.br/handle/icict/25675
dc.language.iso.fl_str_mv eng
language eng
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Oxford University Press
publisher.none.fl_str_mv Oxford University Press
dc.source.none.fl_str_mv reponame:Repositório Institucional da FIOCRUZ (ARCA)
instname:Fundação Oswaldo Cruz (FIOCRUZ)
instacron:FIOCRUZ
instname_str Fundação Oswaldo Cruz (FIOCRUZ)
instacron_str FIOCRUZ
institution FIOCRUZ
reponame_str Repositório Institucional da FIOCRUZ (ARCA)
collection Repositório Institucional da FIOCRUZ (ARCA)
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