High-quality genome assembly and comparative genomics of Pseudocercospora ulei GCL012, the causal agent of the South American leaf blight (SALB) in natural rubber tree Hevea brasiliensis: Towards the prediction of molecular components associated with its pathogenicity and virulence
ilustraciones, gráficas, fotografías a color, tablas
- Autores:
-
González Sáyer, Sandra Milena
- Tipo de recurso:
- Doctoral thesis
- Fecha de publicación:
- 2021
- Institución:
- Universidad Nacional de Colombia
- Repositorio:
- Universidad Nacional de Colombia
- Idioma:
- eng
- OAI Identifier:
- oai:repositorio.unal.edu.co:unal/80147
- Palabra clave:
- 570 - Biología
Patología vegetal
Hongos fitopatógenos
Microorganismos fitopatógenos
Plant diseases
Phytopathogenic fungi
Micro-organisms, phytopathogenic
Micro-organismes - phytopathogen
Natural rubber
South American Leaf Blight
PacBio
Nanopore
Transposable elements
- Rights
- openAccess
- License
- Atribución-NoComercial-SinDerivadas 4.0 Internacional
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UNACIONAL2 |
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| dc.title.eng.fl_str_mv |
High-quality genome assembly and comparative genomics of Pseudocercospora ulei GCL012, the causal agent of the South American leaf blight (SALB) in natural rubber tree Hevea brasiliensis: Towards the prediction of molecular components associated with its pathogenicity and virulence |
| dc.title.translated.spa.fl_str_mv |
Ensamblaje del genoma de alta calidad y genómica comparativa de Pseudocercospora ulei GCL012, el agente causal del tizón foliar sudamericano (SALB) en el árbol de caucho natural Hevea brasiliensis: hacia la predicción de componentes moleculares asociados con su patogenicidad y virulencia |
| title |
High-quality genome assembly and comparative genomics of Pseudocercospora ulei GCL012, the causal agent of the South American leaf blight (SALB) in natural rubber tree Hevea brasiliensis: Towards the prediction of molecular components associated with its pathogenicity and virulence |
| spellingShingle |
High-quality genome assembly and comparative genomics of Pseudocercospora ulei GCL012, the causal agent of the South American leaf blight (SALB) in natural rubber tree Hevea brasiliensis: Towards the prediction of molecular components associated with its pathogenicity and virulence 570 - Biología Patología vegetal Hongos fitopatógenos Microorganismos fitopatógenos Plant diseases Phytopathogenic fungi Micro-organisms, phytopathogenic Micro-organismes - phytopathogen Natural rubber South American Leaf Blight PacBio Nanopore Transposable elements |
| title_short |
High-quality genome assembly and comparative genomics of Pseudocercospora ulei GCL012, the causal agent of the South American leaf blight (SALB) in natural rubber tree Hevea brasiliensis: Towards the prediction of molecular components associated with its pathogenicity and virulence |
| title_full |
High-quality genome assembly and comparative genomics of Pseudocercospora ulei GCL012, the causal agent of the South American leaf blight (SALB) in natural rubber tree Hevea brasiliensis: Towards the prediction of molecular components associated with its pathogenicity and virulence |
| title_fullStr |
High-quality genome assembly and comparative genomics of Pseudocercospora ulei GCL012, the causal agent of the South American leaf blight (SALB) in natural rubber tree Hevea brasiliensis: Towards the prediction of molecular components associated with its pathogenicity and virulence |
| title_full_unstemmed |
High-quality genome assembly and comparative genomics of Pseudocercospora ulei GCL012, the causal agent of the South American leaf blight (SALB) in natural rubber tree Hevea brasiliensis: Towards the prediction of molecular components associated with its pathogenicity and virulence |
| title_sort |
High-quality genome assembly and comparative genomics of Pseudocercospora ulei GCL012, the causal agent of the South American leaf blight (SALB) in natural rubber tree Hevea brasiliensis: Towards the prediction of molecular components associated with its pathogenicity and virulence |
| dc.creator.fl_str_mv |
González Sáyer, Sandra Milena |
| dc.contributor.advisor.none.fl_str_mv |
Fabio Ancizar, Aristizabal Gutierrez Diego Mauricio, Riaño Pachón |
| dc.contributor.author.none.fl_str_mv |
González Sáyer, Sandra Milena |
| dc.contributor.researchgroup.spa.fl_str_mv |
Bioprocesos y bioprospección - Linea Caucho Natural Laboratório de Biologia Computacional, Evolutiva e de Sistemas (LabBCES) Centro de Energia Nuclear na Agricultura (CENA) |
| dc.subject.ddc.spa.fl_str_mv |
570 - Biología |
| topic |
570 - Biología Patología vegetal Hongos fitopatógenos Microorganismos fitopatógenos Plant diseases Phytopathogenic fungi Micro-organisms, phytopathogenic Micro-organismes - phytopathogen Natural rubber South American Leaf Blight PacBio Nanopore Transposable elements |
| dc.subject.lemb.spa.fl_str_mv |
Patología vegetal Hongos fitopatógenos Microorganismos fitopatógenos |
| dc.subject.lemb.eng.fl_str_mv |
Plant diseases Phytopathogenic fungi Micro-organisms, phytopathogenic Micro-organismes - phytopathogen |
| dc.subject.proposal.spa.fl_str_mv |
Natural rubber |
| dc.subject.proposal.eng.fl_str_mv |
South American Leaf Blight PacBio Nanopore Transposable elements |
| description |
ilustraciones, gráficas, fotografías a color, tablas |
| publishDate |
2021 |
| dc.date.accessioned.none.fl_str_mv |
2021-09-09T18:34:48Z |
| dc.date.available.none.fl_str_mv |
2021-09-09T18:34:48Z |
| dc.date.issued.none.fl_str_mv |
2021-08-04 |
| dc.type.spa.fl_str_mv |
Trabajo de grado - Doctorado |
| dc.type.driver.spa.fl_str_mv |
info:eu-repo/semantics/doctoralThesis |
| dc.type.version.spa.fl_str_mv |
info:eu-repo/semantics/acceptedVersion |
| dc.type.coar.spa.fl_str_mv |
http://purl.org/coar/resource_type/c_db06 |
| dc.type.content.spa.fl_str_mv |
Text |
| dc.type.redcol.spa.fl_str_mv |
http://purl.org/redcol/resource_type/TD |
| format |
http://purl.org/coar/resource_type/c_db06 |
| status_str |
acceptedVersion |
| dc.identifier.uri.none.fl_str_mv |
https://repositorio.unal.edu.co/handle/unal/80147 |
| dc.identifier.instname.spa.fl_str_mv |
Universidad Nacional de Colombia |
| dc.identifier.reponame.spa.fl_str_mv |
Repositorio Institucional Universidad Nacional de Colombia |
| dc.identifier.repourl.spa.fl_str_mv |
https://repositorio.unal.edu.co/ |
| url |
https://repositorio.unal.edu.co/handle/unal/80147 https://repositorio.unal.edu.co/ |
| identifier_str_mv |
Universidad Nacional de Colombia Repositorio Institucional Universidad Nacional de Colombia |
| dc.language.iso.spa.fl_str_mv |
eng |
| language |
eng |
| dc.relation.references.spa.fl_str_mv |
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Atribución-NoComercial-SinDerivadas 4.0 Internacionalhttp://creativecommons.org/licenses/by-nc-nd/4.0/info:eu-repo/semantics/openAccesshttp://purl.org/coar/access_right/c_abf2Fabio Ancizar, Aristizabal Gutierrez99ad53acba2927fcd045f4cf8b415c1fDiego Mauricio, Riaño Pachón68a688b0bcf35111a273332db619bc3eGonzález Sáyer, Sandra Milenabf59611e315912569a47430ad847d994Bioprocesos y bioprospección - Linea Caucho NaturalLaboratório de Biologia Computacional, Evolutiva e de Sistemas (LabBCES) Centro de Energia Nuclear na Agricultura (CENA)2021-09-09T18:34:48Z2021-09-09T18:34:48Z2021-08-04https://repositorio.unal.edu.co/handle/unal/80147Universidad Nacional de ColombiaRepositorio Institucional Universidad Nacional de Colombiahttps://repositorio.unal.edu.co/ilustraciones, gráficas, fotografías a color, tablasPseudocercospora ulei is the causal agent of South American Leaf Blight (SALB), the main threat of Hevea brasiliensis an Amazonia native species that represent the commercial source of natural rubber. H. brasiliensis crop is an important economical alternative to Latino american countries however, SALB disease control strategies are inefficient as a reason for the difficulty of traditional plant breeding in this perennial species and also for the lack of genetic data about this fungus. Our main goal was to understand the molecular mechanisms that govern the basic biology and pathogenicity process of this fungus. For that, we sequenced, assembled, and annotated its genome through a whole-genome shotgun sequencing using long and short reads. We built the biggest genome of the Mycospharelaceae family with 98.3 Mbps comprising 214 scaffolds with an N50 value of 2.8 Mbps and a BUSCOs completeness of 97.5%. The P. ulei genome harbour 12’745 gene models form which 756 were classed as secreted proteins and 113 were as effectors candidates including 54 presenting potential activity in the host apoplast. P.ulei exhibits a remarkably reduced content of CAZymes and secondary metabolism genes clusters with 216 and fourteen assignments respectively. This genome bears an exceptional repetitive content, 80% of the genome size is occupied by repetitive elements mainly classified in Class I revealing a genome size expansion via repetitive elements which could play an essential role in the environment fungal adaptation and the pathogenicity mechanisms evolution.Pseudocercospora ulei es el agente causal del mal suramericano de las hojas del caucho (SALB), la principal amenaza de Hevea brasiliensis, una especie nativa de la Amazonía que representa la fuente comercial de caucho natural. El cultivo de H. brasiliensis es una alternativa económica importante para los países latinoamericanos; sin embargo, las estrategias de control de la enfermedad SALB son ineficientes debido a la dificultad del fitomejoramiento tradicional en esta especie perenne y también a la falta de datos genéticos sobre este hongo. Nuestro principal objetivo fue comprender los mecanismos moleculares que gobiernan la biología básica y el proceso de patogenicidad de P. ulei. Para eso, secuenciamos, ensamblamos y anotamos su genoma a través de una secuenciación de escopeta de genoma completo usando lecturas largas y cortas. Construimos el genoma más grande de la familia Mycospharelaceae con 98,3 Mbps que comprende 214 andamios con un valor N50 de 2,8 Mbps y una integridad BUSCO del 97,5%. El genoma de P. ulei alberga 12'745 modelos de genes de los cuales 756 se clasificaron como proteínas secretadas y 113 fueron candidatos a efectores, incluidos 54 que presentan actividad potencial en el apoplasto del huésped. P. ulei exhibe un contenido notablemente reducido de CAZymes y de agrupaciones de genes asociados a metabolismo secundario con 216 y catorce asignaciones respectivamente. Este genoma tiene un contenido repetitivo excepcional, el 80% del tamaño del genoma está ocupado por elementos repetitivos clasificados principalmente en Clase I revelando una expansión del tamaño del genoma a través de elementos repetitivos que podrían jugar un papel esencial en la adaptación fúngica ambiental y la evolución de los mecanismos de patogenicidad. (Texto tomado de la fuente)DoctoradoDoctor en BiotecnologíaGenómica comparativaBiología computacionalMicrobiologíaxx, 164 páginasapplication/pdfengUniversidad Nacional de ColombiaBogotá - Ciencias - Doctorado en BiotecnologíaInstituto de Biotecnología (IBUN)Facultad de CienciasBogotá, ColombiaUniversidad Nacional de Colombia - Sede Bogotá570 - BiologíaPatología vegetalHongos fitopatógenosMicroorganismos fitopatógenosPlant diseasesPhytopathogenic fungiMicro-organisms, phytopathogenicMicro-organismes - phytopathogenNatural rubberSouth American Leaf BlightPacBioNanoporeTransposable elementsHigh-quality genome assembly and comparative genomics of Pseudocercospora ulei GCL012, the causal agent of the South American leaf blight (SALB) in natural rubber tree Hevea brasiliensis: Towards the prediction of molecular components associated with its pathogenicity and virulenceEnsamblaje del genoma de alta calidad y genómica comparativa de Pseudocercospora ulei GCL012, el agente causal del tizón foliar sudamericano (SALB) en el árbol de caucho natural Hevea brasiliensis: hacia la predicción de componentes moleculares asociados con su patogenicidad y virulenciaTrabajo de grado - Doctoradoinfo:eu-repo/semantics/doctoralThesisinfo:eu-repo/semantics/acceptedVersionhttp://purl.org/coar/resource_type/c_db06Texthttp://purl.org/redcol/resource_type/TD• Akinsanmi, O and Carvalhais L. 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Current Opinion in Plant Biology, 8, 353-360.High-quality genome assembly and comparative genomics of Pseudocercospora ulei GCL012, the causal agent of the South American leaf blight (SALB) in natural rubber tree Hevea brasiliensis: Towards the prediction of molecular components associated with its pathogenicity and virulenceColcienciasPúblico generalLICENSElicense.txtlicense.txttext/plain; charset=utf-83964https://repositorio.unal.edu.co/bitstream/unal/80147/3/license.txtcccfe52f796b7c63423298c2d3365fc6MD53ORIGINALSandra_Gonzalez_Sayer_PhD_final_version_2021.pdfSandra_Gonzalez_Sayer_PhD_final_version_2021.pdfTesis de Doctorado en Biotecnologíaapplication/pdf4791865https://repositorio.unal.edu.co/bitstream/unal/80147/4/Sandra_Gonzalez_Sayer_PhD_final_version_2021.pdf1f872a328eb83b25e7ee9e3708e328ebMD54THUMBNAILSandra_Gonzalez_Sayer_PhD_final_version_2021.pdf.jpgSandra_Gonzalez_Sayer_PhD_final_version_2021.pdf.jpgGenerated 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