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dc.contributor.authorIraola, Gregorio [Univ Mayor, Ctr Integrat Biol, Santiago, Chile]es_CL
dc.contributor.authorDíaz-Viraque, Florenciaes_CL
dc.contributor.authorPita, Sebastiánes_CL
dc.contributor.authorGreif, Gonzaloes_CL
dc.contributor.authorMoreira De Souza, Rita de Cassiaes_CL
dc.contributor.authorRobello, Carloses_CL
dc.date.accessioned2020-04-12T14:11:55Z
dc.date.accessioned2020-04-14T15:37:36Z
dc.date.available2020-04-12T14:11:55Z
dc.date.available2020-04-14T15:37:36Z
dc.date.issued2019es_CL
dc.identifier.citationDíaz-Viraqué, F., Pita, S., Greif, G., de Souza, R. D. C. M., Iraola, G., & Robello, C. (2019). Nanopore sequencing significantly improves genome assembly of the protozoan parasite Trypanosoma cruzi. Genome biology and evolution, 11(7), 1952-1957.es_CL
dc.identifier.issn1759-6653es_CL
dc.identifier.urihttps://doi.org/10.1093/gbe/evz129es_CL
dc.identifier.urihttp://repositorio.umayor.cl/xmlui/handle/sibum/6364
dc.description.abstractChagas disease was described by Carlos Chagas, who first identified the parasite Trypanosoma cruzi from a 2-year-old girl called Berenice. Many T. cruzi sequencing projects based on short reads have demonstrated that genome assembly and downstream comparative analyses are extremely challenging in this species, given that half of its genome is composed of repetitive sequences. Here, we report de novo assemblies, annotation, and comparative analyses of the Berenice strain using a combination of Illumina short reads andMinION long reads. Our work demonstrates that Nanopore sequencing improves T. cruzi assembly contiguity and increases the assembly size in similar to 16 Mb. Specifically, we found that assembly improvement also refines the completeness of coding regions for both single-copy genes and repetitive transposable elements. Beyond its historical and epidemiological importance, Berenice constitutes a fundamental resource because it now constitutes a high-quality assembly available for TcII (clade C), a prevalent lineage causing human infections in South America. The availability of Berenice genome expands the known genetic diversity of these parasites and reinforces the idea that T. cruzi is intraspecifically divided in three main clades. Finally, this work represents the introduction of Nanopore technology to resolve complex protozoan genomes, supporting its subsequent application for improving trypanosomatid and other highly repetitive genomes.es_CL
dc.description.sponsorshipAgencia Nacional de Investigacion e Innovacion (ANII) [DCI-ALA/2011/023-502]; Fondo para la Convergencia Estructural del Mercado Comun del Sur (FOCEM) [03/11]; UK Research and Innovation via the Global Challenges Research Fund under"A Global Network for Neglected Tropical Diseases"[MR/P027989/1]; Fundacao de Amparo a Pesquisa do Estado de Minas GeraisMinas Gerais State Research Foundation (FAPEMIG) [CBB-AUC-00030-15]; ANII [POS_NAC_2016_1_129916]es_CL
dc.description.sponsorshipThis work was supported by Agencia Nacional de Investigacion e Innovacion (ANII) (DCI-ALA/2011/023-502),"Contrato de apoyo a las politicas de innovacion y cohesion territorial,"Fondo para la Convergencia Estructural del Mercado Comun del Sur (FOCEM) 03/11; UK Research and Innovation via the Global Challenges Research Fund under grant agreement"A Global Network for Neglected Tropical Diseases"grant number MR/P027989/1; and Fundacao de Amparo a Pesquisa do Estado de Minas Gerais (CBB-AUC-00030-15). S.P., G.I., G.G., and C.R. are members of the"Sistema Nacional de Investigadores (ANII)"; F.D.-V. has an ANII doctoral fellowship no. POS_NAC_2016_1_129916. The authors declared they have no conflicts of interest.es_CL
dc.language.isoenes_CL
dc.publisherOXFORD UNIV PRESSes_CL
dc.rightsAttribution-NonCommercial-NoDerivs 3.0 Chile
dc.sourceGenome Biol. Evol., JUL, 2019. 11(7): p. 1952-1957
dc.subjectEvolutionary Biology; Genetics & Heredityes_CL
dc.titleNanopore Sequencing Significantly Improves Genome Assembly of the Protozoan Parasite Trypanosoma cruzies_CL
umayor.facultadCIENCIAS
umayor.politicas.sherpa/romeoDOAJ Gold, Green Publishedes_CL
umayor.indexadoWOS:000484039500021es_CL
umayor.indexadoPMID: 31218350es_CL
dc.identifier.doiDOI: 10.1093/gbe/evz129es_CL]
umayor.indicadores.wos-(cuartil)Q2es_CL
umayor.indicadores.scopus-(scimago-sjr)SCIMAGO/ INDICE H: 60 Hes_CL


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