Estimating Transcriptome Diversity and Specialization in Capsicum annuum L



Te invitamos a leer el artículo "Estimating Transcriptome Diversity and Specialization in Capsicum annuum L" publicado en Plants, ​a cargo del profesor investigador de la Unidad de Genómica Avanzada del Cinvestav Dr. Octavio Martínez de la Vega, el Dr. Neftalí Ochoa Alejo, Profesor Investigador de la Unidad Irapuato y su equipo de trabajo de la UGA-Langebio.

Autores: Neftalí Ochoa-Alejo 1 M. Humberto Reyes-Valdés 2 and Octavio Martínez 3

  1. Departamento de Ingeniería Genética, Unidad Irapuato, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional, Irapuato 36824, Guanajuato, Mexico

  2. Department of Plant Breeding, Universidad Autónoma Agraria Antonio Narro, Saltillo 25315, Coahuila, Mexico

  3. Unidad de Genómica Avanzada (Langebio), Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional (Cinvestav), Irapuato 36824, Guanajuato, Mexico

Felicitamos al estudiantado y profesorado que contribuyeron en esta investigación por su arduo trabajo.


Chili pepper fruits of the genus Capsicum represent excellent experimental models to study the growth, development, and ripening processes in a non-climacteric species at the physiological, biochemical, and molecular levels. Fruit growth, development, and ripening involve a complex, harmonious, and finely controlled regulation of gene expression. The purpose of this study was to estimate the changes in transcriptome diversity and specialization, as well as gene specificities during fruit development in this crop, and to illustrate the advantages of estimating these parameters. To achieve these aims, we programmed and made publicly available an R package. In this study, we applied these methods to a set of 179 RNA-Seq libraries from a factorial experiment that includes 12 different genotypes at various stages of fruit development. We found that the diversity of the transcriptome decreases linearly from the flower to the mature fruit, while its specialization follows a complex and non-linear behavior during this process. Additionally, by defining sets of genes with different degrees of specialization and applying Gene Ontology enrichment analysis, we identified processes, functions, and components that play a central role in particular fruit development stages. In conclusion, the estimation of diversity, specialization, and specificity summarizes the global properties of the transcriptomes, providing insights that are difficult to achieve by other means.

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13/06/2023 01:20:42 p. m.