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Functional categorization of de novo transcriptome assembly of Vanilla planifolia Jacks. potentially points to a translational regulation during early stages of infection by Fusarium oxysporum f. sp. vanillae.
BMC Genomics 2019; 20(1):826BG

Abstract

BACKGROUND

Upon exposure to unfavorable environmental conditions, plants need to respond quickly to maintain their homeostasis. For instance, physiological, biochemical and transcriptional changes occur during plant-pathogen interaction. In the case of Vanilla planifolia Jacks., a worldwide economically important crop, it is susceptible to Fusarium oxysporum f. sp. vanillae (Fov). This pathogen causes root and stem rot (RSR) in vanilla plants that lead to plant death. To investigate how vanilla plants, respond at the transcriptional level upon infection with Fov, here we employed the RNA-Seq approach to analyze the dynamics of whole-transcriptome changes during two-time frames of the infection.

RESULTS

Analysis of global gene expression profiles upon infection by Fov indicated that the major transcriptional change occurred at 2 days post-inoculation (dpi), in comparison to 10 dpi. Briefly, the RNA-Seq analysis carried out in roots found that 3420 and 839 differentially expressed genes (DEGs) were detected at 2 and 10 dpi, respectively, as compared to the control. In the case of DEGs at 2 dpi, 1563 genes were found to be up-regulated, whereas 1857 genes were down-regulated. Moreover, functional categorization of DEGs at 2 dpi indicated that up-regulated genes are mainly associated to translation, whereas down-regulated genes are involved in cell wall remodeling. Among the translational-related transcripts, ribosomal proteins (RPs) were found increased their expression exclusively at 2 dpi.

CONCLUSIONS

The screening of transcriptional changes of V. planifolia Jacks upon infection by Fov provides insights into the plant molecular response, particularly at early stages of infection. The accumulation of translational-related transcripts at early stages of infection potentially points to a transcriptional reprogramming coupled with a translational regulation in vanilla plants upon infection by Fov. Altogether, the results presented here highlight potential molecular players that might be further studied to improve Fov-induced resistance in vanilla plants.

Authors+Show Affiliations

Instituto de Biotecnología y Ecología Aplicada (INBIOTECA), Universidad Veracruzana, Avenida de las Culturas Veracruzanas s/n, Xalapa, Veracruz, Mexico. Instituto de Ecología, Universidad Nacional Autónoma de México, Circuito Exterior S/N anexo, Jardín Botánico exterior, Ciudad Universitaria, Ciudad de México, Mexico.Tecnológico Nacional de México, Instituto Tecnológico de Úrsulo Galván, Úrsulo Galván, Veracruz, Mexico.Consejo Nacional de Ciencia y Tecnología - Centro de Investigación en Biotecnología Aplicada, Instituto Politécnico Nacional (CIBA-IPN), Av. Insurgentes Sur 1582, Col. Crédito Constructor, Del. Benito Juárez, 03940, Ciudad de México, Mexico.Unidad Universitaria de Secuenciación Masiva y Bioinformática, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico.Instituto de Ciencias Aplicadas y Tecnología, Universidad Nacional Autónoma de México, Ciudad de México, Mexico.Instituto de Biotecnología y Ecología Aplicada (INBIOTECA), Universidad Veracruzana, Avenida de las Culturas Veracruzanas s/n, Xalapa, Veracruz, Mexico.Unidad de Genómica Avanzada, Langebio, Cinvestav, Km 9.6 Libramiento Norte Carretera León, Irapuato, Guanajuato, Mexico.Laboratorio de Genética e Interacciones Planta Microorganismos, Facultad de Ciencias Agrícolas, Universidad Veracruzana. Circuito Gonzalo Aguirre Beltrán s/n, Zona Universitaria, Xalapa, Veracruz, Mexico. mluna@uv.mx.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

31703622

Citation

Solano-De la Cruz, Marco Tulio, et al. "Functional Categorization of De Novo Transcriptome Assembly of Vanilla Planifolia Jacks. Potentially Points to a Translational Regulation During Early Stages of Infection By Fusarium Oxysporum F. Sp. Vanillae." BMC Genomics, vol. 20, no. 1, 2019, p. 826.
Solano-De la Cruz MT, Adame-García J, Gregorio-Jorge J, et al. Functional categorization of de novo transcriptome assembly of Vanilla planifolia Jacks. potentially points to a translational regulation during early stages of infection by Fusarium oxysporum f. sp. vanillae. BMC Genomics. 2019;20(1):826.
Solano-De la Cruz, M. T., Adame-García, J., Gregorio-Jorge, J., Jiménez-Jacinto, V., Vega-Alvarado, L., Iglesias-Andreu, L. G., ... Luna-Rodríguez, M. (2019). Functional categorization of de novo transcriptome assembly of Vanilla planifolia Jacks. potentially points to a translational regulation during early stages of infection by Fusarium oxysporum f. sp. vanillae. BMC Genomics, 20(1), p. 826. doi:10.1186/s12864-019-6229-5.
Solano-De la Cruz MT, et al. Functional Categorization of De Novo Transcriptome Assembly of Vanilla Planifolia Jacks. Potentially Points to a Translational Regulation During Early Stages of Infection By Fusarium Oxysporum F. Sp. Vanillae. BMC Genomics. 2019 Nov 8;20(1):826. PubMed PMID: 31703622.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Functional categorization of de novo transcriptome assembly of Vanilla planifolia Jacks. potentially points to a translational regulation during early stages of infection by Fusarium oxysporum f. sp. vanillae. AU - Solano-De la Cruz,Marco Tulio, AU - Adame-García,Jacel, AU - Gregorio-Jorge,Josefat, AU - Jiménez-Jacinto,Verónica, AU - Vega-Alvarado,Leticia, AU - Iglesias-Andreu,Lourdes Georgina, AU - Escobar-Hernández,Esteban Elías, AU - Luna-Rodríguez,Mauricio, Y1 - 2019/11/08/ PY - 2019/07/12/received PY - 2019/10/28/accepted PY - 2019/11/10/entrez PY - 2019/11/11/pubmed PY - 2019/11/11/medline KW - Biological defense KW - Biotic stress KW - Ribosomal proteins KW - Transcriptional reprogramming KW - Translational regulation SP - 826 EP - 826 JF - BMC genomics JO - BMC Genomics VL - 20 IS - 1 N2 - BACKGROUND: Upon exposure to unfavorable environmental conditions, plants need to respond quickly to maintain their homeostasis. For instance, physiological, biochemical and transcriptional changes occur during plant-pathogen interaction. In the case of Vanilla planifolia Jacks., a worldwide economically important crop, it is susceptible to Fusarium oxysporum f. sp. vanillae (Fov). This pathogen causes root and stem rot (RSR) in vanilla plants that lead to plant death. To investigate how vanilla plants, respond at the transcriptional level upon infection with Fov, here we employed the RNA-Seq approach to analyze the dynamics of whole-transcriptome changes during two-time frames of the infection. RESULTS: Analysis of global gene expression profiles upon infection by Fov indicated that the major transcriptional change occurred at 2 days post-inoculation (dpi), in comparison to 10 dpi. Briefly, the RNA-Seq analysis carried out in roots found that 3420 and 839 differentially expressed genes (DEGs) were detected at 2 and 10 dpi, respectively, as compared to the control. In the case of DEGs at 2 dpi, 1563 genes were found to be up-regulated, whereas 1857 genes were down-regulated. Moreover, functional categorization of DEGs at 2 dpi indicated that up-regulated genes are mainly associated to translation, whereas down-regulated genes are involved in cell wall remodeling. Among the translational-related transcripts, ribosomal proteins (RPs) were found increased their expression exclusively at 2 dpi. CONCLUSIONS: The screening of transcriptional changes of V. planifolia Jacks upon infection by Fov provides insights into the plant molecular response, particularly at early stages of infection. The accumulation of translational-related transcripts at early stages of infection potentially points to a transcriptional reprogramming coupled with a translational regulation in vanilla plants upon infection by Fov. Altogether, the results presented here highlight potential molecular players that might be further studied to improve Fov-induced resistance in vanilla plants. SN - 1471-2164 UR - https://www.unboundmedicine.com/medline/citation/31703622/Functional_categorization_of_de_novo_transcriptome_assembly_of_Vanilla_planifolia_Jacks._potentially_points_to_a_translational_regulation_during_early_stages_of_infection_by_Fusarium_oxysporum_f._sp._vanillae L2 - https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-019-6229-5 DB - PRIME DP - Unbound Medicine ER -