1
|
Garrido-Gala J, Higuera JJ, Rodríguez-Franco A, Muñoz-Blanco J, Amil-Ruiz F, Caballero JL. A Comprehensive Study of the WRKY Transcription Factor Family in Strawberry. Plants 2022; 11:plants11121585. [PMID: 35736736 PMCID: PMC9229891 DOI: 10.3390/plants11121585] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/06/2022] [Revised: 06/10/2022] [Accepted: 06/11/2022] [Indexed: 11/16/2022]
Abstract
WRKY transcription factors play critical roles in plant growth and development or stress responses. Using up-to-date genomic data, a total of 64 and 257 WRKY genes have been identified in the diploid woodland strawberry, Fragaria vesca, and the more complex allo-octoploid commercial strawberry, Fragaria × ananassa cv. Camarosa, respectively. The completeness of the new genomes and annotations has enabled us to perform a more detailed evolutionary and functional study of the strawberry WRKY family members, particularly in the case of the cultivated hybrid, in which homoeologous and paralogous FaWRKY genes have been characterized. Analysis of the available expression profiles has revealed that many strawberry WRKY genes show preferential or tissue-specific expression. Furthermore, significant differential expression of several FaWRKY genes has been clearly detected in fruit receptacles and achenes during the ripening process and pathogen challenged, supporting a precise functional role of these strawberry genes in such processes. Further, an extensive analysis of predicted development, stress and hormone-responsive cis-acting elements in the strawberry WRKY family is shown. Our results provide a deeper and more comprehensive knowledge of the WRKY gene family in strawberry.
Collapse
Affiliation(s)
| | - José-Javier Higuera
- Departamento de Bioquímica y Biología Molecular, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario ceiA3, Edificio Severo Ochoa-C6, Universidad de Córdoba, 14071 Córdoba, Spain; (J.-J.H.); (A.R.-F.); (J.M.-B.)
| | - Antonio Rodríguez-Franco
- Departamento de Bioquímica y Biología Molecular, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario ceiA3, Edificio Severo Ochoa-C6, Universidad de Córdoba, 14071 Córdoba, Spain; (J.-J.H.); (A.R.-F.); (J.M.-B.)
| | - Juan Muñoz-Blanco
- Departamento de Bioquímica y Biología Molecular, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario ceiA3, Edificio Severo Ochoa-C6, Universidad de Córdoba, 14071 Córdoba, Spain; (J.-J.H.); (A.R.-F.); (J.M.-B.)
| | - Francisco Amil-Ruiz
- Unidad de Bioinformática, Servicio Central de Apoyo a la Investigación (SCAI), Universidad de Córdoba, 14071 Córdoba, Spain;
| | - José L. Caballero
- Departamento de Bioquímica y Biología Molecular, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario ceiA3, Edificio Severo Ochoa-C6, Universidad de Córdoba, 14071 Córdoba, Spain; (J.-J.H.); (A.R.-F.); (J.M.-B.)
- Correspondence:
| |
Collapse
|
2
|
Martínez-Rivas FJ, Blanco-Portales R, Molina-Hidalgo FJ, Caballero JL, Perez de Souza L, Alseekh S, Fernie AR, Muñoz-Blanco J, Rodríguez-Franco A. Azacytidine arrests ripening in cultivated strawberry (Fragaria × ananassa) by repressing key genes and altering hormone contents. BMC Plant Biol 2022; 22:278. [PMID: 35672704 PMCID: PMC9172142 DOI: 10.1186/s12870-022-03670-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/07/2022] [Accepted: 05/31/2022] [Indexed: 06/15/2023]
Abstract
BACKGROUND Strawberry ripening involves a number of irreversible biochemical reactions that cause sensory changes through accumulation of sugars, acids and other compounds responsible for fruit color and flavor. The process, which is strongly dependent on methylation marks in other fruits such as tomatoes and oranges, is highly controlled and coordinated in strawberry. RESULTS Repeated injections of the hypomethylating compound 5-azacytidine (AZA) into green and unripe Fragaria × ananassa receptacles fully arrested the ripening of the fruit. The process, however, was reversible since treated fruit parts reached full maturity within a few days after AZA treatment was stopped. Transcriptomic analyses showed that key genes responsible for the biosynthesis of anthocyanins, phenylpropanoids, and hormones such as abscisic acid (ABA) were affected by the AZA treatment. In fact, AZA downregulated genes associated with ABA biosynthetic genes but upregulated genes associated with its degradation. AZA treatment additionally downregulated a number of essential transcription factors associated with the regulation and control of ripening. Metabolic analyses revealed a marked imbalance in hormone levels, with treated parts accumulating auxins, gibberellins and ABA degradation products, as well as metabolites associated with unripe fruits. CONCLUSIONS AZA completely halted strawberry ripening by altering the hormone balance, and the expression of genes involves in hormone biosynthesis and degradation processes. These results contradict those previously obtained in other climacteric and fleshly fruits, where AZA led to premature ripening. In any case, our results suggests that the strawberry ripening process is governed by methylation marks.
Collapse
Affiliation(s)
- Félix Juan Martínez-Rivas
- Department of Biochemistry and Molecular Biology, University of Cordoba, Edificio Severo Ochoa, Campus de Rabanales, E-14014, Córdoba, Spain.
- Max-Planck-Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany.
| | - Rosario Blanco-Portales
- Department of Biochemistry and Molecular Biology, University of Cordoba, Edificio Severo Ochoa, Campus de Rabanales, E-14014, Córdoba, Spain
| | - Francisco Javier Molina-Hidalgo
- Department of Biochemistry and Molecular Biology, University of Cordoba, Edificio Severo Ochoa, Campus de Rabanales, E-14014, Córdoba, Spain
| | - José Luis Caballero
- Department of Biochemistry and Molecular Biology, University of Cordoba, Edificio Severo Ochoa, Campus de Rabanales, E-14014, Córdoba, Spain
| | - Leonardo Perez de Souza
- Max-Planck-Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - Saleh Alseekh
- Max-Planck-Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
- Center of Plant Systems Biology and Biotechnology, Ruski Blvd. 139, 4000, Plovdiv, Bulgaria
| | - Alisdair R Fernie
- Max-Planck-Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
- Center of Plant Systems Biology and Biotechnology, Ruski Blvd. 139, 4000, Plovdiv, Bulgaria
| | - Juan Muñoz-Blanco
- Department of Biochemistry and Molecular Biology, University of Cordoba, Edificio Severo Ochoa, Campus de Rabanales, E-14014, Córdoba, Spain.
| | - Antonio Rodríguez-Franco
- Department of Biochemistry and Molecular Biology, University of Cordoba, Edificio Severo Ochoa, Campus de Rabanales, E-14014, Córdoba, Spain.
| |
Collapse
|
3
|
Súnico V, Higuera JJ, Molina-Hidalgo FJ, Blanco-Portales R, Moyano E, Rodríguez-Franco A, Muñoz-Blanco J, Caballero JL. The Intragenesis and Synthetic Biology Approach towards Accelerating Genetic Gains on Strawberry: Development of New Tools to Improve Fruit Quality and Resistance to Pathogens. Plants (Basel) 2021; 11:plants11010057. [PMID: 35009061 PMCID: PMC8747664 DOI: 10.3390/plants11010057] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/29/2021] [Revised: 12/15/2021] [Accepted: 12/21/2021] [Indexed: 05/13/2023]
Abstract
Under climate change, the spread of pests and pathogens into new environments has a dramatic effect on crop protection control. Strawberry (Fragaria spp.) is one the most profitable crops of the Rosaceae family worldwide, but more than 50 different genera of pathogens affect this species. Therefore, accelerating the improvement of fruit quality and pathogen resistance in strawberry represents an important objective for breeding and reducing the usage of pesticides. New genome sequencing data and bioinformatics tools has provided important resources to expand the use of synthetic biology-assisted intragenesis strategies as a powerful tool to accelerate genetic gains in strawberry. In this paper, we took advantage of these innovative approaches to create four RNAi intragenic silencing cassettes by combining specific strawberry new promoters and pathogen defense-related candidate DNA sequences to increase strawberry fruit quality and resistance by silencing their corresponding endogenous genes, mainly during fruit ripening stages, thus avoiding any unwanted effect on plant growth and development. Using a fruit transient assay, GUS expression was detected by the two synthetic FvAAT2 and FvDOF2 promoters, both by histochemical assay and qPCR analysis of GUS transcript levels, thus ensuring the ability of the same to drive the expression of the silencing cassettes in this strawberry tissue. The approaches described here represent valuable new tools for the rapid development of improved strawberry lines.
Collapse
|
4
|
Galán-Relaño Á, Gómez-Gascón L, Rodríguez-Franco A, Luque I, Huerta B, Tarradas C, Rodríguez-Ortega MJ. Search of Potential Vaccine Candidates against Trueperella pyogenes Infections through Proteomic and Bioinformatic Analysis. Vaccines (Basel) 2020; 8:vaccines8020314. [PMID: 32560444 PMCID: PMC7350218 DOI: 10.3390/vaccines8020314] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2020] [Revised: 06/11/2020] [Accepted: 06/14/2020] [Indexed: 11/16/2022] Open
Abstract
Trueperella pyogenes is an opportunistic pathogen, responsible for important infections in pigs and significant economic losses in swine production. To date, there are no available commercial vaccines to control diseases caused by this bacterium. In this work, we performed a comparative proteomic analysis of 15 T. pyogenes clinical isolates, by “shaving” live cells, followed by LC-MS/MS, aiming at the identification of the whole set of surface proteins (i.e., the “pan-surfome”) as a source of antigens to be tested in further studies as putative vaccine candidates, or used in diagnostic tools. A total of 140 surface proteins were detected, comprising 25 cell wall proteins, 10 secreted proteins, 23 lipoproteins and 82 membrane proteins. After describing the “pan-surfome”, the identified proteins were ranked in three different groups based on the following criteria: to be (i) surface-exposed, (ii) highly conserved and (iii) widely distributed among different isolates. Two cell wall proteins, three lipoproteins, four secreted and seven membrane proteins were identified in more than 70% of the studied strains, were highly expressed and highly conserved. These proteins are potential candidates, alone or in combination, to obtain effective vaccines against T. pyogenes or to be used in the diagnosis of this pathogen.
Collapse
Affiliation(s)
- Ángela Galán-Relaño
- Departamento de Sanidad Animal, Universidad de Córdoba; Campus de Excelencia Internacional CeiA3, 14071 Córdoba, Spain; (Á.G.-R.); (I.L.); (B.H.); (C.T.)
| | - Lidia Gómez-Gascón
- Departamento de Sanidad Animal, Universidad de Córdoba; Campus de Excelencia Internacional CeiA3, 14071 Córdoba, Spain; (Á.G.-R.); (I.L.); (B.H.); (C.T.)
- Correspondence:
| | - Antonio Rodríguez-Franco
- Departamento de Bioquímica y Biología Molecular, Universidad de Córdoba, and Campus de Excelencia Internacional CeiA3, 14071 Córdoba, Spain; (A.R.-F.); (M.J.R.-O.)
| | - Inmaculada Luque
- Departamento de Sanidad Animal, Universidad de Córdoba; Campus de Excelencia Internacional CeiA3, 14071 Córdoba, Spain; (Á.G.-R.); (I.L.); (B.H.); (C.T.)
| | - Belén Huerta
- Departamento de Sanidad Animal, Universidad de Córdoba; Campus de Excelencia Internacional CeiA3, 14071 Córdoba, Spain; (Á.G.-R.); (I.L.); (B.H.); (C.T.)
| | - Carmen Tarradas
- Departamento de Sanidad Animal, Universidad de Córdoba; Campus de Excelencia Internacional CeiA3, 14071 Córdoba, Spain; (Á.G.-R.); (I.L.); (B.H.); (C.T.)
| | - Manuel J. Rodríguez-Ortega
- Departamento de Bioquímica y Biología Molecular, Universidad de Córdoba, and Campus de Excelencia Internacional CeiA3, 14071 Córdoba, Spain; (A.R.-F.); (M.J.R.-O.)
| |
Collapse
|
5
|
Martí JM, Arias-Giraldo LF, Díaz-Villanueva W, Arnau V, Rodríguez-Franco A, Garay CP. Metatranscriptomic dynamics after Verticillium dahliae infection and root damage in Olea europaea. BMC Plant Biol 2020; 20:79. [PMID: 32066386 PMCID: PMC7027230 DOI: 10.1186/s12870-019-2185-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/25/2019] [Accepted: 12/05/2019] [Indexed: 05/07/2023]
Abstract
BACKGROUND The olive tree is of particular economic interest in the Mediterranean basin. Researchers have conducted several studies on one of the most devastating disorders affecting this tree, the Verticillium wilt, which causes substantial economic losses in numerous areas. We analyzed metatranscriptomic samples taken from a previous study conducted on leaves and roots of Olea europaea that were infected with Verticillium dahliae. In addition, we also analyzed mechanically damaged roots. The aim of our approach is to describe the dynamics of the root microbiome after severe perturbations. RESULTS Our results not only describe the dynamics of the microbial community associated with the disturbance, but also show the high complexity of these systems and explain how this can lead to a conflicting assignment of the various types of parasitism observed in a specific organism. CONCLUSIONS Our findings indicate that this infection, although led by Verticillium, is driven not by a single species, but by a polymicrobial consortium that also includes natural endophytes of the olive tree. This community contains both biotrophic and necrotrophic organisms that alternate and live together during the infection. In addition, opportunistic organisms appear that take profit not from plant tissues, but from new emerging populations of microorganisms. Therefore, this system can be described as a complex biological system composed of different interacting communities. Notably, our work has important considerations when it comes to classifying the type of parasitism of a given species.
Collapse
Affiliation(s)
- Jose Manuel Martí
- Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA, 94720 USA
- DOE Joint BioEnergy Institute, 5885 Hollis St, Emeryville, CA, 94608 USA
- Institute for Integrative Systems Biology (I2SysBio), UVEG-CSIC, Catedrático José Beltrán, 2, Paternas, Valencia, 46980 Spain
| | - Luis F. Arias-Giraldo
- Institute for Integrative Systems Biology (I2SysBio), UVEG-CSIC, Catedrático José Beltrán, 2, Paternas, Valencia, 46980 Spain
- Institute for Sustainable Agriculture - CSIC, Avenida Menéndez Pidal s/n, Córdoba, 14004 Spain
| | - Wladimiro Díaz-Villanueva
- Institute for Integrative Systems Biology (I2SysBio), UVEG-CSIC, Catedrático José Beltrán, 2, Paternas, Valencia, 46980 Spain
| | - Vicente Arnau
- Institute for Integrative Systems Biology (I2SysBio), UVEG-CSIC, Catedrático José Beltrán, 2, Paternas, Valencia, 46980 Spain
| | - Antonio Rodríguez-Franco
- Department of Biochemistry and Molecular Biology, University of Cordoba, Campus de Rabanales, Edificio Severo Ochoa, Córdoba, 14071 Spain
| | - Carlos P. Garay
- Institute for Integrative Systems Biology (I2SysBio), UVEG-CSIC, Catedrático José Beltrán, 2, Paternas, Valencia, 46980 Spain
- Laboratorio Subterráneo de Canfranc (LSC), Camino de los Ayerbes s/n, Canfranc-Estación, Huesca, 22880 Spain
| |
Collapse
|
6
|
Medina-Puche L, Martínez-Rivas FJ, Molina-Hidalgo FJ, Mercado JA, Moyano E, Rodríguez-Franco A, Caballero JL, Muñoz-Blanco J, Blanco-Portales R. An atypical HLH transcriptional regulator plays a novel and important role in strawberry ripened receptacle. BMC Plant Biol 2019; 19:586. [PMID: 31881835 PMCID: PMC6933692 DOI: 10.1186/s12870-019-2092-4] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2019] [Accepted: 10/21/2019] [Indexed: 05/13/2023]
Abstract
BACKGROUND In soft fruits, the differential expression of many genes during development and ripening is responsible for changing their organoleptic properties. In strawberry fruit, although some genes involved in the metabolic regulation of the ripening process have been functionally characterized, some of the most studied genes correspond to transcription factors. High throughput transcriptomics analyses performed in strawberry red receptacle (Fragaria x ananassa) allowed us to identify a ripening-related gene that codes an atypical HLH (FaPRE1) with high sequence homology with the PACLOBUTRAZOL RESISTANCE (PRE) genes. PRE genes are atypical bHLH proteins characterized by the lack of a DNA-binding domain and whose function has been linked to the regulation of cell elongation processes. RESULTS FaPRE1 sequence analysis indicates that this gene belongs to the subfamily of atypical bHLHs that also includes ILI-1 from rice, SlPRE2 from tomato and AtPRE1 from Arabidopsis, which are involved in transcriptional regulatory processes as repressors, through the blockage by heterodimerization of bHLH transcription factors. FaPRE1 presented a transcriptional model characteristic of a ripening-related gene with receptacle-specific expression, being repressed by auxins and activated by abscisic acid (ABA). However, its expression was not affected by gibberellic acid (GA3). On the other hand, the transitory silencing of FaPRE1 transcription by agroinfiltration in receptacle produced the down-regulation of a group of genes related to the ripening process while inducing the transcription of genes involved in receptacle growth and development. CONCLUSIONS In summary, this work presents for the first time experimental data that support an important novel function for the atypical HLH FaPRE1 during the strawberry fruit ripening. We hypothesize that FaPRE1 modulates antagonistically the transcription of genes related to both receptacle growth and ripening. Thus, FaPRE1 would repress the expression of receptacle growth promoting genes in the ripened receptacle, while it would activate the expression of those genes related to the receptacle ripening process.
Collapse
Affiliation(s)
- Laura Medina-Puche
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
- Present Address: Shanghai Center for Plant Stress Biology (PSC), Shanghai Institutes of Biological Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Félix J. Martínez-Rivas
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
| | - Francisco J. Molina-Hidalgo
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
- Present Address: VIB-UGent Center for Plant Systems Biology, Ghent, Belgium
| | - José A. Mercado
- Instituto de Hortofruticultura Subtropical y Mediterránea La Mayora (IHSM-UMA-CSIC), Departamento de Biología Vegetal, Universidad de Málaga, Málaga, Spain
| | - Enriqueta Moyano
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
| | - Antonio Rodríguez-Franco
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
| | - José L. Caballero
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
| | - Juan Muñoz-Blanco
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
| | - Rosario Blanco-Portales
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
| |
Collapse
|
7
|
Jiménez-Munguía I, Calderón-Santiago M, Rodríguez-Franco A, Priego-Capote F, Rodríguez-Ortega MJ. Multi-omic profiling to assess the effect of iron starvation in Streptococcus pneumoniae TIGR4. PeerJ 2018; 6:e4966. [PMID: 29915696 PMCID: PMC6004102 DOI: 10.7717/peerj.4966] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2018] [Accepted: 05/23/2018] [Indexed: 11/20/2022] Open
Abstract
We applied multi-omics approaches (transcriptomics, proteomics and metabolomics) to study the effect of iron starvation on the Gram-positive human pathogen Streptococcus pneumoniae to elucidate global changes in the bacterium in a condition similar to what can be found in the host during an infectious episode. We treated the reference strain TIGR4 with the iron chelator deferoxamine mesylate. DNA microarrays revealed changes in the expression of operons involved in multiple biological processes, with a prevalence of genes coding for ion binding proteins. We also studied the changes in protein abundance by 2-DE followed by MALDI-TOF/TOF analysis of total cell extracts and secretome fractions. The main proteomic changes were found in proteins related to the primary and amino sugar metabolism, especially in enzymes with divalent cations as cofactors. Finally, the metabolomic analysis of intracellular metabolites showed altered levels of amino sugars involved in the cell wall peptidoglycan metabolism. This work shows the utility of multi-perspective studies that can provide complementary results for the comprehension of how a given condition can influence global physiological changes in microorganisms.
Collapse
Affiliation(s)
- Irene Jiménez-Munguía
- Departamento de Bioquímica y Biología Molecular, Universidad de Córdoba; Campus de Excelencia Internacional CeiA3, Córdoba, Spain
| | - Mónica Calderón-Santiago
- Departamento de Química Analítica, Universidad de Córdoba; Campus de Excelencia Internacional CeiA3, Córdoba, Spain
| | - Antonio Rodríguez-Franco
- Departamento de Bioquímica y Biología Molecular, Universidad de Córdoba; Campus de Excelencia Internacional CeiA3, Córdoba, Spain
| | - Feliciano Priego-Capote
- Departamento de Química Analítica, Universidad de Córdoba; Campus de Excelencia Internacional CeiA3, Córdoba, Spain
| | - Manuel J Rodríguez-Ortega
- Departamento de Bioquímica y Biología Molecular, Universidad de Córdoba; Campus de Excelencia Internacional CeiA3, Córdoba, Spain
| |
Collapse
|
8
|
Moyano E, Martínez-Rivas FJ, Blanco-Portales R, Molina-Hidalgo FJ, Ric-Varas P, Matas-Arroyo AJ, Caballero JL, Muñoz-Blanco J, Rodríguez-Franco A. Genome-wide analysis of the NAC transcription factor family and their expression during the development and ripening of the Fragaria × ananassa fruits. PLoS One 2018; 13:e0196953. [PMID: 29723301 PMCID: PMC5933797 DOI: 10.1371/journal.pone.0196953] [Citation(s) in RCA: 34] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2018] [Accepted: 04/23/2018] [Indexed: 12/02/2022] Open
Abstract
NAC proteins are a family of transcription factors which have a variety of important regulatory roles in plants. They present a very well conserved group of NAC subdomains in the N-terminal region and a highly variable domain at the C-terminus. Currently, knowledge concerning NAC family in the strawberry plant remains very limited. In this work, we analyzed the NAC family of Fragaria vesca, and a total of 112 NAC proteins were identified after we curated the annotations from the version 4.0.a1 genome. They were placed into the ligation groups (pseudo-chromosomes) and described its physicochemical and genetic features. A microarray transcriptomic analysis showed six of them expressed during the development and ripening of the Fragaria x ananassa fruit. Their expression patterns were studied in fruit (receptacle and achenes) in different stages of development and in vegetative tissues. Also, the expression level under different hormonal treatments (auxins, ABA) and drought stress was investigated. In addition, they were clustered with other NAC transcription factor with known function related to growth and development, senescence, fruit ripening, stress response, and secondary cell wall and vascular development. Our results indicate that these six strawberry NAC proteins could play different important regulatory roles in the process of development and ripening of the fruit, providing the basis for further functional studies and the selection for NAC candidates suitable for biotechnological applications.
Collapse
Affiliation(s)
- Enriqueta Moyano
- Departamento de Bioquímica y Biología Molecular, Campus de Rabanales, Edificio Severo Ochoa, Universidad de Córdoba, Córdoba, Spain
| | - Félix J. Martínez-Rivas
- Departamento de Bioquímica y Biología Molecular, Campus de Rabanales, Edificio Severo Ochoa, Universidad de Córdoba, Córdoba, Spain
| | - Rosario Blanco-Portales
- Departamento de Bioquímica y Biología Molecular, Campus de Rabanales, Edificio Severo Ochoa, Universidad de Córdoba, Córdoba, Spain
| | - Francisco Javier Molina-Hidalgo
- Departamento de Bioquímica y Biología Molecular, Campus de Rabanales, Edificio Severo Ochoa, Universidad de Córdoba, Córdoba, Spain
| | - Pablo Ric-Varas
- Instituto de Hortofruticultura Subtropical y Mediterránea “La Mayora” (IHSM-UMA-CSIC), Departamento de Biología Vegetal, Universidad de Málaga, Málaga, Spain
| | - Antonio J. Matas-Arroyo
- Instituto de Hortofruticultura Subtropical y Mediterránea “La Mayora” (IHSM-UMA-CSIC), Departamento de Biología Vegetal, Universidad de Málaga, Málaga, Spain
| | - José Luis Caballero
- Departamento de Bioquímica y Biología Molecular, Campus de Rabanales, Edificio Severo Ochoa, Universidad de Córdoba, Córdoba, Spain
| | - Juan Muñoz-Blanco
- Departamento de Bioquímica y Biología Molecular, Campus de Rabanales, Edificio Severo Ochoa, Universidad de Córdoba, Córdoba, Spain
| | - Antonio Rodríguez-Franco
- Departamento de Bioquímica y Biología Molecular, Campus de Rabanales, Edificio Severo Ochoa, Universidad de Córdoba, Córdoba, Spain
- * E-mail:
| |
Collapse
|
9
|
Molina-Hidalgo FJ, Medina-Puche L, Cañete-Gómez C, Franco-Zorrilla JM, López-Vidriero I, Solano R, Caballero JL, Rodríguez-Franco A, Blanco-Portales R, Muñoz-Blanco J, Moyano E. The fruit-specific transcription factor FaDOF2 regulates the production of eugenol in ripe fruit receptacles. J Exp Bot 2017; 68:4529-4543. [PMID: 28981772 DOI: 10.1093/jxb/erx257] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
Only a few transcription factors have been described in the regulation of the strawberry (Fragaria x ananassa) fruit ripening process. Using a transcriptomic approach, we identified and functionally characterized FaDOF2, a DOF-type ripening-related transcription factor, which is hormonally regulated and specific to the receptacle, though high expression levels were also found in petals. The expression pattern of FaDOF2 correlated with eugenol content, a phenylpropanoid volatile, in both fruit receptacles and petals. When FaDOF2 expression was silenced in ripe strawberry receptacles, the expression of FaEOBII and FaEGS2, two key genes involved in eugenol production, were down-regulated. These fruits showed a concomitant decrease in eugenol content, which confirmed that FaDOF2 is a transcription factor that is involved in eugenol production in ripe fruit receptacles. By using the yeast two-hybrid system and bimolecular fluorescence complementation, we demonstrated that FaDOF2 interacts with FaEOBII, a previously reported regulator of eugenol production, which determines fine-tuning of the expression of key genes that are involved in eugenol production. These results provide evidence that FaDOF2 plays a subsidiary regulatory role with FaEOBII in the expression of genes encoding enzymes that control eugenol production. Taken together, our results provide new insights into the regulation of the volatile phenylpropanoid pathway in ripe strawberry receptacles.
Collapse
Affiliation(s)
- Francisco Javier Molina-Hidalgo
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071 Córdoba,Spain
| | - Laura Medina-Puche
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071 Córdoba, Spain
- Shanghai Center for Plant Stress Biology, Shanghai Institutes of Biological Sciences, University of Chinese Academy of Sciences, Shanghai 200031, China
| | - Carlos Cañete-Gómez
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071 Córdoba,Spain
| | | | | | - Roberto Solano
- Department of Plant Molecular Genetics, Centro Nacional de Biotecnología-CSIC, Darwin 3, 28049-Madrid, Spain
| | - José Luis Caballero
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071 Córdoba,Spain
| | - Antonio Rodríguez-Franco
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071 Córdoba,Spain
| | - Rosario Blanco-Portales
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071 Córdoba,Spain
| | - Juan Muñoz-Blanco
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071 Córdoba,Spain
| | - Enriqueta Moyano
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071 Córdoba,Spain
| |
Collapse
|
10
|
Medina-Puche L, Blanco-Portales R, Molina-Hidalgo FJ, Cumplido-Laso G, García-Caparrós N, Moyano-Cañete E, Caballero-Repullo JL, Muñoz-Blanco J, Rodríguez-Franco A. Extensive transcriptomic studies on the roles played by abscisic acid and auxins in the development and ripening of strawberry fruits. Funct Integr Genomics 2016; 16:671-692. [PMID: 27614432 DOI: 10.1007/s10142-016-0510-3] [Citation(s) in RCA: 49] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2016] [Revised: 07/17/2016] [Accepted: 07/20/2016] [Indexed: 11/29/2022]
Abstract
Strawberry is an ideal model for studying the molecular biology of the development and ripening of non-climacteric fruits. Hormonal regulation of gene expression along all these processes in strawberries is still to be fully elucidated. Although auxins and ABA have been pointed out as the major regulatory hormones, few high-throughput analyses have been carried out to date. The role for ethylene and gibberellins as regulatory hormones during the development and ripening of the strawberry fruit remain still elusive. By using a custom-made and high-quality oligo microarray platform done with over 32,000 probes including all of the genes actually described in the strawberry genome, we have analysed the expression of genes during the development and ripening in the receptacles of these fruits. We classify these genes into two major groups depending upon their temporal and developmental expression. First group are genes induced during the initial development stages. The second group encompasses genes induced during the final maturation and ripening processes. Each of these two groups has been also divided into four sub-groups according their pattern of hormonal regulation. By analyzing gene expression, we clearly show that auxins and ABA are the main and key hormones that combined or independently are responsible of the development and ripening process. Auxins are responsible for the receptacle fruit development and, at the same time¸ prevent ripening by repressing crucial genes. ABA regulates the expression of the vast majority of genes involved in the ripening. The main genes expressed under the control of these hormones are presented and their physiological rule discussed. We also conclude that ethylene and gibberellins do not seem to play a prominent role during these processes.
Collapse
Affiliation(s)
- Laura Medina-Puche
- Departamento de Bioquímica y Biología Molecular. Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071, Córdoba, Spain
| | - Rosario Blanco-Portales
- Departamento de Bioquímica y Biología Molecular. Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071, Córdoba, Spain
| | - Francisco Javier Molina-Hidalgo
- Departamento de Bioquímica y Biología Molecular. Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071, Córdoba, Spain
| | - Guadalupe Cumplido-Laso
- Departamento de Bioquímica y Biología Molecular. Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071, Córdoba, Spain
| | - Nicolás García-Caparrós
- Departamento de Bioquímica y Biología Molecular. Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071, Córdoba, Spain
| | - Enriqueta Moyano-Cañete
- Departamento de Bioquímica y Biología Molecular. Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071, Córdoba, Spain
| | - José Luis Caballero-Repullo
- Departamento de Bioquímica y Biología Molecular. Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071, Córdoba, Spain
| | - Juan Muñoz-Blanco
- Departamento de Bioquímica y Biología Molecular. Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071, Córdoba, Spain.
| | - Antonio Rodríguez-Franco
- Departamento de Bioquímica y Biología Molecular. Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071, Córdoba, Spain
| |
Collapse
|
11
|
Medina-Puche L, Cumplido-Laso G, Amil-Ruiz F, Hoffmann T, Ring L, Rodríguez-Franco A, Caballero JL, Schwab W, Muñoz-Blanco J, Blanco-Portales R. MYB10 plays a major role in the regulation of flavonoid/phenylpropanoid metabolism during ripening of Fragaria x ananassa fruits. J Exp Bot 2014; 65:401-17. [PMID: 24277278 DOI: 10.1093/jxb/ert377] [Citation(s) in RCA: 170] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
This work characterized the role of the R2R3-MYB10 transcription factor (TF) in strawberry fruit ripening. The expression of this TF takes place mainly in the fruit receptacle and is repressed by auxins and activated by abscisic acid (ABA), in parallel to the ripening process. Anthocyanin was not produced when FaMYB10 expression was transiently silenced in fruit receptacles. An increase in FaMYB10 expression was observed in water-stressed fruits, which was accompanied by an increase in both ABA and anthocyanin content. High-throughput transcriptomic analyses performed in fruits with downregulated FaMYB10 expression indicated that this TF regulates the expression of most of the Early-regulated Biosynthesis Genes (EBGs) and the Late-regulated Biosynthesis Genes (LBGs) genes involved in anthocyanin production in ripened fruit receptacles. Besides, the expression of FaMYB10 was not regulated by FaMYB1 and vice versa. Taken together, all these data clearly indicate that the Fragaria × ananassa MYB10 TF plays a general regulatory role in the flavonoid/phenylpropanoid pathway during the ripening of strawberry.
Collapse
Affiliation(s)
- Laura Medina-Puche
- Departamento de Bioquímica y Biología Molecular. Edificio Severo Ochoa, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, 14071 Córdoba, Spain
| | | | | | | | | | | | | | | | | | | |
Collapse
|