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De novo Transcriptome Assembly and Comprehensive Annotation of Two Tree Tomato Cultivars (Solanum betaceum Cav.) with Different Fruit Color

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De novo Transcriptome Assembly and Comprehensive Annotation of Two Tree Tomato Cultivars (Solanum betaceum Cav.) with Different Fruit Color

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dc.contributor.author Pacheco, Juan es_ES
dc.contributor.author Vilanova Navarro, Santiago es_ES
dc.contributor.author Grillo-Risco, Rubén es_ES
dc.contributor.author García-García, Francisco es_ES
dc.contributor.author Prohens Tomás, Jaime es_ES
dc.contributor.author Gramazio, Pietro es_ES
dc.date.accessioned 2022-06-30T18:07:36Z
dc.date.available 2022-06-30T18:07:36Z
dc.date.issued 2021-11 es_ES
dc.identifier.uri http://hdl.handle.net/10251/183718
dc.description.abstract [EN] The tree tomato (Solanum betaceum Cav.) is an underutilized fruit crop native to the Andean region and phylogenetically related to the tomato and potato. Tree tomato fruits have a high amount of nutrients and bioactive compounds. However, so far there are no studies at the genome or transcriptome level for this species. We performed a de novo assembly and transcriptome annotation for purple-fruited (A21) and an orange-fruited (A23) accessions. A total of 174,252 (A21) and 194,417 (A23) transcripts were assembled with an average length of 851 and 849 bp. A total of 34,636 (A21) and 36,224 (A23) transcripts showed a significant similarity to known proteins. Among the annotated unigenes, 22,096 (A21) and 23,095 (A23) were assigned to the Gene Ontology (GO) term and 14,035 (A21) and 14,540 (A23) were found to have Clusters of Orthologous Group (COG) term classifications. Furthermore, 22,096 (A21) and 23,095 (A23) transcripts were assigned to 155 and 161 (A23) KEGG pathways. The carotenoid biosynthetic process GO terms were significantly enriched in the purple-fruited accession A21. Finally, 68,647 intraspecific single-nucleotide variations (SNVs) and almost 2 million interspecific SNVs were identified. The results of this study provide a wealth of genomic data for the genetic improvement of the tree tomato. es_ES
dc.description.sponsorship Pietro Gramazio is grateful to the Spanish Ministerio de Ciencia e Innovacion for a Juan de laCierva-Formacion post-doctoral grant FJC2019-038921-I funded by MCIN/AEI/10.13039/501100011033) es_ES
dc.language Inglés es_ES
dc.publisher MDPI AG es_ES
dc.relation.ispartof Horticulturae es_ES
dc.rights Reconocimiento (by) es_ES
dc.subject De novo transcriptome assembly es_ES
dc.subject Emerging crop es_ES
dc.subject Functional annotation es_ES
dc.subject Molecular markers es_ES
dc.subject RNA-Seq es_ES
dc.subject Solanaceae es_ES
dc.subject Solanum betaceum es_ES
dc.subject Structural annotation es_ES
dc.subject.classification GENETICA es_ES
dc.title De novo Transcriptome Assembly and Comprehensive Annotation of Two Tree Tomato Cultivars (Solanum betaceum Cav.) with Different Fruit Color es_ES
dc.type Artículo es_ES
dc.identifier.doi 10.3390/horticulturae7110431 es_ES
dc.relation.projectID info:eu-repo/grantAgreement/MICINN//FJC2019-038921-I//Juan de la Cierva-Formación post-doctoral grant/ es_ES
dc.rights.accessRights Abierto es_ES
dc.contributor.affiliation Universitat Politècnica de València. Departamento de Biotecnología - Departament de Biotecnologia es_ES
dc.contributor.affiliation Universitat Politècnica de València. Instituto Universitario Mixto de Biología Molecular y Celular de Plantas - Institut Universitari Mixt de Biologia Molecular i Cel·lular de Plantes es_ES
dc.description.bibliographicCitation Pacheco, J.; Vilanova Navarro, S.; Grillo-Risco, R.; García-García, F.; Prohens Tomás, J.; Gramazio, P. (2021). De novo Transcriptome Assembly and Comprehensive Annotation of Two Tree Tomato Cultivars (Solanum betaceum Cav.) with Different Fruit Color. Horticulturae. 7(11):1-18. https://doi.org/10.3390/horticulturae7110431 es_ES
dc.description.accrualMethod S es_ES
dc.relation.publisherversion https://doi.org/10.3390/horticulturae7110431 es_ES
dc.description.upvformatpinicio 1 es_ES
dc.description.upvformatpfin 18 es_ES
dc.type.version info:eu-repo/semantics/publishedVersion es_ES
dc.description.volume 7 es_ES
dc.description.issue 11 es_ES
dc.identifier.eissn 2311-7524 es_ES
dc.relation.pasarela S\462035 es_ES
dc.contributor.funder Ministerio de Ciencia e Innovación es_ES
dc.subject.ods 02.- Poner fin al hambre, conseguir la seguridad alimentaria y una mejor nutrición, y promover la agricultura sostenible es_ES
upv.costeAPC 1694 es_ES


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