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Chromosome-level genome assembly of Triatoma dimidiata Latreille, 1811 (Hemiptera: Reduviidae: Triatominae)

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dc.contributor.advisorRamírez González, Juan David
dc.contributor.gruplacGrupo de Investigaciones Microbiológicas UR (GIMUR)
dc.creatorAlvarado López, Mateo Andrés
dc.creatorCantillo-Barraza, Omar
dc.creatorLuna, Nicolás
dc.creatorHernández, Carolina
dc.creatorPaniz-Mondolfi, Alberto
dc.creatorRamírez González, Juan David
dc.creator.degreeMagíster en Ciencias Naturales
dc.creator.degreeLevelMaestríaspa
dc.date.accessioned2025-02-04T15:40:25Z
dc.date.available2025-02-04T15:40:25Z
dc.date.created2025-01-27
dc.descriptionTriatoma dimidiata es un vector principal de Trypanosoma cruzi, el parásito responsable de la enfermedad de Chagas, que afecta a millones de personas en todo el mundo. Su distribución se extiende desde el centro de México hasta el norte de Ecuador y Perú, con variaciones ecológicas y epidemiológicas marcadas a lo largo de este rango, lo que conlleva a desafíos taxonómicos y al reconocimiento de T. dimidiata como un complejo de especies crípticas. A pesar de los esfuerzos realizados con marcadores morfológicos y moleculares, los análisis filogenéticos siguen siendo inconclusos, dificultando su clasificación. Resolver estos problemas taxonómicos es fundamental para desarrollar estrategias de control de vectores eficaces y específicas. Dado que los marcadores moleculares tradicionales han demostrado ser insuficientes, los análisis a escala genómica ofrecen una alternativa prometedora. Sin embargo, la ausencia de un genoma de referencia anotado para T. dimidiata ha limitado estudios genómicos de amplio alcance. Para abordar esta necesidad, ensamblamos y anotamos un genoma de referencia de alta calidad y resolución haplotípica a nivel cromosómico para T. dimidiata, integrando lecturas de alta fidelidad de PacBio (HiFi), secuenciación Illumina de extremos emparejados, Hi-C y RNAseq. Los ensamblajes resultantes, con longitudes de 1,31 Gb y 1,30 Gb, demuestran alta completitud y continuidad. Aproximadamente, el 95% de estas secuencias fueron organizadas en 10 y 12 pseudo-cromosomas, respectivamente. Además, el análisis del contenido repetitivo reveló que más del 50% del genoma se compone de elementos repetitivos. Utilizando transcriptomas ensamblados, métodos ab initio y homología de proteínas para la predicción de genes, identificamos 338,033 genes potenciales. Este recurso genómico llena un vacío crucial en la genómica de T. dimidiata, allanando el camino para estudios de genómica funcional y poblacional. Facilitará el descubrimiento de marcadores genéticos asociados a rasgos importantes como la resistencia a insecticidas y la adaptación ecológica, proporcionando conocimientos esenciales para desarrollar medidas de control específicas. Nuestro ensamblaje establece una base para investigaciones adicionales sobre la biología, la dinámica poblacional y la competencia vectorial de T. dimidiata, avanzando en los esfuerzos globales para combatir la enfermedad de Chagas.
dc.description.abstractTriatoma dimidiata is a primary vector of Trypanosoma cruzi, the parasite responsible for Chagas disease, which impacts millions worldwide. Its distribution extends from central Mexico to northern Ecuador and Peru, with marked ecological and epidemiological variations across this range, leading to taxonomic challenges and the recognition of T. dimidiata as a cryptic species complex. Despite efforts using morphological and molecular markers, phylogenetic analyses remain inconclusive, complicating its classification. Resolving these taxonomic issues is essential for creating effective, targeted vector control strategies. Given that traditional molecular markers have proven insufficient, genome-scale analyses offer a promising alternative. However, the lack of an annotated reference genome for T. dimidiata has hindered comprehensive genome-wide studies. To address this, we assembled and annotated a high-quality, chromosome-level haplotype-resolved reference genome of T. dimidiata, integrating PacBio High Fidelity (HiFi), Illumina DNA paired-end, Hi-C, and RNAseq reads. The resulting assemblies, with lengths of 1.31 Gb and 1.30 Gb, demonstrate high completeness and contiguity. Approximately, 95% of these sequences were organized into 10 and 12 pseudochromosomes, respectively. Additionally, repetitive content analysis revealed that more than 50% of the genome comprises repetitive elements. Using assembled transcriptomes, ab initio methods, and protein homology for gene prediction, we identified 338,033 potential genes. This genome resource fills a crucial gap in T. dimidiata genomics, paving the way for functional genomics and population studies. It will facilitate the discovery of genetic markers associated with vital traits like insecticide resistance and ecological adaptation, providing insights essential for developing targeted control measures. Our assembly establishes a foundation for further research into T. dimidiata’s biology, population dynamics, and vector competence, advancing global efforts to combat Chagas disease.
dc.description.sponsorshipWellcome Sanger Institute
dc.format.extent35 pp
dc.format.mimetypeapplication/pdf
dc.identifier.doihttps://doi.org/10.48713/10336_44924
dc.identifier.urihttps://repository.urosario.edu.co/handle/10336/44924
dc.language.isoeng
dc.publisherUniversidad del Rosario
dc.publisher.departmentFacultad de Ciencias Naturales
dc.publisher.gcioCentro de Investigaciones en Microbiología y Biotecnología de la Universidad del Rosario
dc.publisher.programMaestría en Ciencias Naturales
dc.rightsAttribution-NonCommercial-NoDerivatives 4.0 International*
dc.rights.accesRightsinfo:eu-repo/semantics/openAccess
dc.rights.accesoAbierto (Texto Completo)
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/*
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dc.source.instnameinstname:Universidad del Rosario
dc.source.reponamereponame:Repositorio Institucional EdocUR
dc.subjectGenoma de referencia
dc.subjectHaplotipo
dc.subjectTriatomiane
dc.subjectEnfermedad de Chagas
dc.subjectAnotación
dc.subjectPacBio
dc.subjectIllumina
dc.subjectRNAseq
dc.subject.keywordReference genome
dc.subject.keywordHaplotype
dc.subject.keywordTriatominae
dc.subject.keywordChagas disease
dc.subject.keywordAnnotation
dc.subject.keywordPacBio
dc.subject.keywordIllumina
dc.subject.keywordRNAseq
dc.titleChromosome-level genome assembly of Triatoma dimidiata Latreille, 1811 (Hemiptera: Reduviidae: Triatominae)
dc.title.TranslatedTitleEnsamblaje genómico a nivel de cromosoma de Triatoma dimidiata Latreille, 1811 (Hemiptera: Reduviidae: Triatominae)
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dc.type.hasVersioninfo:eu-repo/semantics/acceptedVersion
dc.type.spaTesis
local.department.reportFacultad de Ciencias Naturales
local.regionesBogotá
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